1
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Zhang X, Han Z, Wang Y, Cui K, Li Y, Xie X, Zhang X. Biotic pathways of reciprocal responses between antibiotic resistance genes and inorganic nitrogen cycling genes in amoxicillin-stressed compost ecosystems. BIORESOURCE TECHNOLOGY 2024; 397:130478. [PMID: 38387840 DOI: 10.1016/j.biortech.2024.130478] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2023] [Revised: 02/19/2024] [Accepted: 02/19/2024] [Indexed: 02/24/2024]
Abstract
This study explored the transformation of inorganic nitrogen, the expression levels of antibiotic resistance genes (ARGs), and the regulatory mechanisms of key species on ARGs and inorganic nitrogen cycling genes (INCGs) under different levels of amoxicillin (AMX) stress. High level of AMX inhibited the accumulation of NH4+-N, which increased by 531 % relative to the initial. Moreover, AMX to some extent increased the levels of nirS and nirK, which could potentially result in nitrogen loss and the accumulation of NO2-. Actinobacteria might serve as potential hosts for ARGs during sludge composting. This stress induced a complex response between INCGs and ARGs more complex due to key species. Under high-level AMX pressure, most species associated with ARGs likely derived from nitrogen cycling functional species. To conclude, high levels of AMX stress might lead to nitrogen cycling imbalance and the dissemination of antibiotic resistance genes in composting systems.
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Affiliation(s)
- Xinlin Zhang
- College of Life Science, Northeast Agricultural University, Harbin 150030, PR China
| | - Ziyi Han
- College of Life Science, Northeast Agricultural University, Harbin 150030, PR China
| | - Yumeng Wang
- College of Life Science, Northeast Agricultural University, Harbin 150030, PR China
| | - Kunxue Cui
- College of Life Science, Northeast Agricultural University, Harbin 150030, PR China
| | - Yu Li
- College of Life Science, Northeast Agricultural University, Harbin 150030, PR China
| | - Xinyu Xie
- College of Life Science, Northeast Agricultural University, Harbin 150030, PR China
| | - Xu Zhang
- College of Life Science, Northeast Agricultural University, Harbin 150030, PR China.
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2
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Kokwe L, Nnolim NE, Ezeogu LI, Sithole B, Nwodo UU. Thermoactive metallo-keratinase from Bacillus sp. NFH5: Characterization, structural elucidation, and potential application as detergent additive. Heliyon 2023; 9:e13635. [PMID: 36852054 PMCID: PMC9957710 DOI: 10.1016/j.heliyon.2023.e13635] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2022] [Revised: 02/01/2023] [Accepted: 02/06/2023] [Indexed: 02/15/2023] Open
Abstract
In recent times, robust green technological developments have advanced the goal of a circular economy by minimizing waste generation. The study was undertaken to explore the keratinolytic activity of chicken feather-degrading bacteria from South African soil. Isolates coded as SSN-01 and HSN-01 were identified as Bacillus sp. NFH5 and Bacillus sp. FHNM and their sequences were deposited in GenBank, with accession numbers MW165830.1 and MW165831.1, respectively. Extracellular enzyme production and thiol group generation by Bacillus sp. NFH5 peaked at 120 h with 1879.09 ± 88.70 U/mL and 9.49 ± 0.78 mM, respectively. Glutamic acid (4.44%), aspartic acid (3.50%), arginine (3.23%), glycine (2.61%), serine (2.08%), and proline (2.08%) were relatively higher in concentration. Keratinase (KerBAN) activity was highest at pH 8.0 and 90 °C but was inhibited by both EDTA and 1,10-phenanthroline. In addition, the keratinase-encoding gene (kerBAN) accessioned OK033360 had 362 amino acid residues, with molecular weight and theoretical isoelectric point of 39 kDa and 8.81, respectively. Findings from this study highlight the significance of Bacillus sp. NFH5 in the bio-recycling of recalcitrant keratinous wastes to protein hydrolysates - potential dietary supplements for livestock feeds. The properties of KerBAN underscore its application potential in green biotechnological processes.
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Affiliation(s)
- Lupho Kokwe
- SAMRC Microbial Water Quality Monitoring Centre, University of Fort Hare, Alice, Private Bag X1314, 5700, South Africa.,Applied and Environmental Microbiology Research Group (AEMREG), Department of Biochemistry and Microbiology, University of Fort Hare, Alice, 5700, South Africa
| | - Nonso E Nnolim
- SAMRC Microbial Water Quality Monitoring Centre, University of Fort Hare, Alice, Private Bag X1314, 5700, South Africa.,Applied and Environmental Microbiology Research Group (AEMREG), Department of Biochemistry and Microbiology, University of Fort Hare, Alice, 5700, South Africa
| | - Lewis I Ezeogu
- Department of Microbiology, Faculty of Biological Sciences, University of Nigeria, Nsukka, Nigeria
| | - Bruce Sithole
- The Biorefinery Industry Development Facility, Chemicals Cluster, Council for Scientific and Industrial Research, 359 Mazisi Kunene Road, 4001, Glenwood, Durban, South Africa
| | - Uchechukwu U Nwodo
- SAMRC Microbial Water Quality Monitoring Centre, University of Fort Hare, Alice, Private Bag X1314, 5700, South Africa.,Applied and Environmental Microbiology Research Group (AEMREG), Department of Biochemistry and Microbiology, University of Fort Hare, Alice, 5700, South Africa
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Zhao J, Yan W, Yang Y. DeepTP: A Deep Learning Model for Thermophilic Protein Prediction. Int J Mol Sci 2023; 24:ijms24032217. [PMID: 36768540 PMCID: PMC9917291 DOI: 10.3390/ijms24032217] [Citation(s) in RCA: 10] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2022] [Revised: 01/19/2023] [Accepted: 01/19/2023] [Indexed: 01/26/2023] Open
Abstract
Thermophilic proteins have important value in the fields of biopharmaceuticals and enzyme engineering. Most existing thermophilic protein prediction models are based on traditional machine learning algorithms and do not fully utilize protein sequence information. To solve this problem, a deep learning model based on self-attention and multiple-channel feature fusion was proposed to predict thermophilic proteins, called DeepTP. First, a large new dataset consisting of 20,842 proteins was constructed. Second, a convolutional neural network and bidirectional long short-term memory network were used to extract the hidden features in protein sequences. Different weights were then assigned to features through self-attention, and finally, biological features were integrated to build a prediction model. In a performance comparison with existing methods, DeepTP had better performance and scalability in an independent balanced test set and validation set, with AUC values of 0.944 and 0.801, respectively. In the unbalanced test set, DeepTP had an average precision (AP) of 0.536. The tool is freely available.
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Affiliation(s)
- Jianjun Zhao
- School of Computer Science and Technology, Soochow University, Suzhou 215006, China
- Collaborative Innovation Center of Novel Software Technology and Industrialization, Nanjing 210000, China
| | - Wenying Yan
- Department of Bioinformatics, School of Biology and Basic Medical Sciences, Suzhou Medical College of Soochow University, Soochow University, Suzhou 215123, China
- Center for Systems Biology, Soochow University, Suzhou 215123, China
- Jiangsu Province Engineering Research Center of Precision Diagnostics and Therapeutics Development, Suzhou 215123, China
- Correspondence: (W.Y.); (Y.Y.)
| | - Yang Yang
- School of Computer Science and Technology, Soochow University, Suzhou 215006, China
- Collaborative Innovation Center of Novel Software Technology and Industrialization, Nanjing 210000, China
- Correspondence: (W.Y.); (Y.Y.)
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Pei XD, Li F, Yue SY, Huang XN, Gao TT, Jiao DQ, Wang CH. Production and characterization of novel thermo- and organic solvent-stable keratinase and aminopeptidase from Pseudomonas aeruginosa 4-3 for effective poultry feather degradation. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:2480-2493. [PMID: 35930154 DOI: 10.1007/s11356-022-22367-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/03/2022] [Accepted: 07/29/2022] [Indexed: 06/15/2023]
Abstract
Feather biodegradation is an important premise for efficient resource development and utilization, in which keratinase plays an important role. However, there are few keratinases that combine the high activity, thermal stability, and organic solvent tolerance required for industrialization. This paper reported an efficient feather-degrading Pseudomonas aeruginosa 4-3 isolated from slaughterhouses. After 48 h of fermentation by P. aeruginosa 4-3 in a feather medium at 40 °C, pH 8.0, keratinase was efficiently produced (295.28 ± 5.42 U/mL) with complete feather degradation (95.3 ± 1.5%). Moreover, the keratinase from P. aeruginosa 4-3 showed high optimal temperature (55 °C), good thermal stability, wide pH tolerance, and excellent organic solvent resistance. In addition, P. aeruginosa 4-3-derived aminopeptidases also exhibit excellent thermal stability and organic solvent tolerance. Encouragingly, the reaction of crude keratinase and aminopeptidase with feathers for 8 h resulted in a 78% degradation rate of feathers. These properties make P. aeruginosa 4-3 keratinase and aminopeptidase ideal proteases for potential applications in keratin degradation, as well as provide ideas for the synergistic degradation of keratin by multiple enzymes.
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Affiliation(s)
- Xiao-Dong Pei
- College of Light Industry and Food Engineering, Guangxi University, Nanning, 530004, People's Republic of China
| | - Fan Li
- College of Light Industry and Food Engineering, Guangxi University, Nanning, 530004, People's Republic of China
| | - Shi-Yang Yue
- College of Light Industry and Food Engineering, Guangxi University, Nanning, 530004, People's Republic of China
| | - Xiao-Ni Huang
- College of Light Industry and Food Engineering, Guangxi University, Nanning, 530004, People's Republic of China
| | - Tian-Tian Gao
- College of Light Industry and Food Engineering, Guangxi University, Nanning, 530004, People's Republic of China
| | - Dao-Quan Jiao
- College of Light Industry and Food Engineering, Guangxi University, Nanning, 530004, People's Republic of China
| | - Cheng-Hua Wang
- College of Light Industry and Food Engineering, Guangxi University, Nanning, 530004, People's Republic of China.
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5
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Akram F, Aqeel A, Shoaib M, Haq IU, Shah FI. Multifarious revolutionary aspects of microbial keratinases: an efficient green technology for future generation with prospective applications. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:86913-86932. [PMID: 36271998 DOI: 10.1007/s11356-022-23638-w] [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: 05/14/2022] [Accepted: 10/10/2022] [Indexed: 06/16/2023]
Abstract
Since the dawn of century, tons of keratin bio-waste is generated by the poultry industry annually, and they end up causing environmental havoc. Keratins are highly flexible fibrous proteins which exist in α- and β- forms and provide mechanical strength and stability to structural appendages. The finding of broad-spectrum protease, keratinase, from thermophilic bacteria and fungi, has provided an eco-friendly solution to hydrolyze the peptide bonds in highly recalcitrant keratinous substances such as nails, feathers, claws, and horns into valuable amino acids. Microorganisms produce these proteolytic enzymes by techniques of solid-state and submerged fermentation. However, solid-state fermentation is considered as a yielding approach for the production of thermostable keratinases. This review prioritized the molecular and biochemical properties of microbial keratinases, and the role of keratinases in bringing prodigious impact for the sustainable progress of the economy. It also emphasizes on the current development in keratinase production with the focus to improve the biochemical properties related to enzyme's catalytic activity and stability, and production of mutant and cloned microbial strains to improve the yield of keratinases. Recently, multitude molecular approaches have been employed to enhance enzyme's productivity, activity, and thermostability which makes them suitable for pharmaceutical industry and for the production of animal feed, organic fertilizers, biogas, clearing of animal hides, and detergent formulation. Hence, it can be surmised that microbial keratinolytic enzymes are the conceivable candidates for numerous commercial and industrial applications.
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Affiliation(s)
- Fatima Akram
- Institute of Industrial Biotechnology, Government College University, Lahore, 54000, Pakistan.
| | - Amna Aqeel
- Institute of Industrial Biotechnology, Government College University, Lahore, 54000, Pakistan
| | - Minahil Shoaib
- Institute of Industrial Biotechnology, Government College University, Lahore, 54000, Pakistan
| | - Ikram Ul Haq
- Institute of Industrial Biotechnology, Government College University, Lahore, 54000, Pakistan
- Pakistan Academy of Science, Islamabad, Pakistan
| | - Fatima Iftikhar Shah
- Institute of Industrial Biotechnology, Government College University, Lahore, 54000, Pakistan
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6
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Siddharthan N, Balagurunathan R, Hemalatha N. A novel feather-degrading bacterial isolate Geobacillus thermodenitrificans PS41 isolated from poultry farm soil. Arch Microbiol 2022; 204:565. [PMID: 35982264 DOI: 10.1007/s00203-022-03179-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2022] [Revised: 07/18/2022] [Accepted: 08/08/2022] [Indexed: 11/02/2022]
Abstract
The aim of this present work was to explore the potential feather-degrading bacterial isolates were isolated from poultry farm soil. Isolation and screening of keratinase-producing bacterial isolates were performed in keratin agar medium. The potential keratinase-producing bacterial isolates were identified using morphological, biochemical and molecular characterization. Degradation of chicken feather was optimized using different nutrient or physical factors in feather meal broth medium. Soluble peptide, amino acid and free thiol group liberation during feather degradation were estimated too. The isolated bacterial isolates were found significantly degrading the chicken feathers with keratinase enzyme production. The present study revealed a significantly novel feather-degrading Geobacillus thermodenitrificans PS41 bacterial isolate, isolated from poultry farm soil.
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Affiliation(s)
- Nagarajan Siddharthan
- Department of Microbiology, Periyar University, Periyar Palkalai Nagar, Salem, 636011, India
| | - Ramasamy Balagurunathan
- Department of Microbiology, Periyar University, Periyar Palkalai Nagar, Salem, 636011, India
| | - Natarajan Hemalatha
- Department of Microbiology, Periyar University, Periyar Palkalai Nagar, Salem, 636011, India.
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Hendrick Q, Nnolim NE, Nontongana N, Nwodo UU. Sphingobacterium multivorum HNFx produced thermotolerant and chemostable keratinase on chicken feathers. Biologia (Bratisl) 2022. [DOI: 10.1007/s11756-022-01126-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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8
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Charoenkwan P, Schaduangrat N, Hasan MM, Moni MA, Lió P, Shoombuatong W. Empirical comparison and analysis of machine learning-based predictors for predicting and analyzing of thermophilic proteins. EXCLI JOURNAL 2022; 21:554-570. [PMID: 35651661 PMCID: PMC9150013 DOI: 10.17179/excli2022-4723] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/28/2022] [Accepted: 02/21/2022] [Indexed: 12/15/2022]
Abstract
Thermophilic proteins (TPPs) are critical for basic research and in the food industry due to their ability to maintain a thermodynamically stable fold at extremely high temperatures. Thus, the expeditious identification of novel TPPs through computational models from protein sequences is very desirable. Over the last few decades, a number of computational methods, especially machine learning (ML)-based methods, for in silico prediction of TPPs have been developed. Therefore, it is desirable to revisit these methods and summarize their advantages and disadvantages in order to further develop new computational approaches to achieve more accurate and improved prediction of TPPs. With this goal in mind, we comprehensively investigate a large collection of fourteen state-of-the-art TPP predictors in terms of their dataset size, feature encoding schemes, feature selection strategies, ML algorithms, evaluation strategies and web server/software usability. To the best of our knowledge, this article represents the first comprehensive review on the development of ML-based methods for in silico prediction of TPPs. Among these TPP predictors, they can be classified into two groups according to the interpretability of ML algorithms employed (i.e., computational black-box methods and computational white-box methods). In order to perform the comparative analysis, we conducted a comparative study on several currently available TPP predictors based on two benchmark datasets. Finally, we provide future perspectives for the design and development of new computational models for TPP prediction. We hope that this comprehensive review will facilitate researchers in selecting an appropriate TPP predictor that is the most suitable one to deal with their purposes and provide useful perspectives for the development of more effective and accurate TPP predictors.
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Affiliation(s)
- Phasit Charoenkwan
- Modern Management and Information Technology, College of Arts, Media and Technology, Chiang Mai University, Chiang Mai, Thailand, 50200
| | - Nalini Schaduangrat
- Center of Data Mining and Biomedical Informatics, Faculty of Medical Technology, Mahidol University, Bangkok, Thailand, 10700
| | - Md Mehedi Hasan
- Tulane Center for Biomedical Informatics and Genomics, Division of Biomedical Informatics and Genomics, John W. Deming Department of Medicine, School of Medicine, Tulane University, New Orleans, LA 70112, USA
| | - Mohammad Ali Moni
- School of Health and Rehabilitation Sciences, Faculty of Health and Behavioural Sciences, the University of Queensland, St Lucia, QLD 4072, Australia
| | - Pietro Lió
- Department of Computer Science and Technology, University of Cambridge, Cambridge, CB3 0FD, UK
| | - Watshara Shoombuatong
- Center of Data Mining and Biomedical Informatics, Faculty of Medical Technology, Mahidol University, Bangkok, Thailand, 10700
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Anbesaw MS. Bioconversion of Keratin Wastes Using Keratinolytic Microorganisms to Generate Value-Added Products. Int J Biomater 2022; 2022:2048031. [PMID: 37251738 PMCID: PMC10212687 DOI: 10.1155/2022/2048031] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2021] [Accepted: 11/29/2021] [Indexed: 12/13/2023] Open
Abstract
The management of keratinous wastes generated from different industries is becoming a major concern across the world. In each year, more than a billion tons of keratin waste is released into the environment. Despite some trials that have been performed and utilize this waste into valuable products, still a huge amount of keratin waste from different sources is a less explored biomaterial for making valuable products. This indicates that the huge amount of keratin waste is neither disposed properly nor converted into usable products rather thrown away to the environment that causes environmental pollution. Due to the introduction of this waste associated with different pathogenic organisms into soil and water bodies, human beings and other small and large animals are affected by different diseases. Therefore, there is a need for modern and ecofriendly approaches to dispose and convert this waste into usable products. Hence, the objective of this review is to give a concise overview regarding the degradation of keratin waste by biological approaches using keratinase producing microorganisms. The review also focuses on the practical use of keratinases and the economical importance of bioconverted products of keratinous wastes for different applications. Various researches have been studied about the source, disposal mechanisms, techniques of hydrolysis, potential use, and physical and chemical properties of keratin wastes. However, there is negligible information with regard to the use of keratin wastes as media supplements for the growth of keratinolytic microorganisms and silver retrieval from photographic and used X-ray films. Hence, this review differs from other similar reviews in the literature in that it discusses these neglected concerns.
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Affiliation(s)
- Muhammed Seid Anbesaw
- Wollo University, School of Bio-Science and Technology, Department of Biotechnology, Dessie, Ethiopia
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KARADAGLI MERYEM, OZCAN BAHRIDEVRIM. Isolation of keratinase-producing Bacillus strains and enhanced enzyme production using in vitro mutagenesis. AN ACAD BRAS CIENC 2022; 94:e20191253. [DOI: 10.1590/0001-3765202120191253] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2019] [Accepted: 02/19/2020] [Indexed: 11/22/2022] Open
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Charoenkwan P, Chotpatiwetchkul W, Lee VS, Nantasenamat C, Shoombuatong W. A novel sequence-based predictor for identifying and characterizing thermophilic proteins using estimated propensity scores of dipeptides. Sci Rep 2021; 11:23782. [PMID: 34893688 PMCID: PMC8664844 DOI: 10.1038/s41598-021-03293-w] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2021] [Accepted: 12/01/2021] [Indexed: 02/08/2023] Open
Abstract
Owing to their ability to maintain a thermodynamically stable fold at extremely high temperatures, thermophilic proteins (TTPs) play a critical role in basic research and a variety of applications in the food industry. As a result, the development of computation models for rapidly and accurately identifying novel TTPs from a large number of uncharacterized protein sequences is desirable. In spite of existing computational models that have already been developed for characterizing thermophilic proteins, their performance and interpretability remain unsatisfactory. We present a novel sequence-based thermophilic protein predictor, termed SCMTPP, for improving model predictability and interpretability. First, an up-to-date and high-quality dataset consisting of 1853 TPPs and 3233 non-TPPs was compiled from published literature. Second, the SCMTPP predictor was created by combining the scoring card method (SCM) with estimated propensity scores of g-gap dipeptides. Benchmarking experiments revealed that SCMTPP had a cross-validation accuracy of 0.883, which was comparable to that of a support vector machine-based predictor (0.906-0.910) and 2-17% higher than that of commonly used machine learning models. Furthermore, SCMTPP outperformed the state-of-the-art approach (ThermoPred) on the independent test dataset, with accuracy and MCC of 0.865 and 0.731, respectively. Finally, the SCMTPP-derived propensity scores were used to elucidate the critical physicochemical properties for protein thermostability enhancement. In terms of interpretability and generalizability, comparative results showed that SCMTPP was effective for identifying and characterizing TPPs. We had implemented the proposed predictor as a user-friendly online web server at http://pmlabstack.pythonanywhere.com/SCMTPP in order to allow easy access to the model. SCMTPP is expected to be a powerful tool for facilitating community-wide efforts to identify TPPs on a large scale and guiding experimental characterization of TPPs.
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Affiliation(s)
- Phasit Charoenkwan
- grid.7132.70000 0000 9039 7662Modern Management and Information Technology, College of Arts, Media and Technology, Chiang Mai University, Chiang Mai, 50200 Thailand
| | - Warot Chotpatiwetchkul
- grid.419784.70000 0001 0816 7508Applied Computational Chemistry Research Unit, Department of Chemistry, School of Science, King Mongkut’s Institute of Technology Ladkrabang, Bangkok, 10520 Thailand
| | - Vannajan Sanghiran Lee
- grid.10347.310000 0001 2308 5949Department of Chemistry, Centre of Theoretical and Computational Physics, Faculty of Science, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Chanin Nantasenamat
- grid.10223.320000 0004 1937 0490Center of Data Mining and Biomedical Informatics, Faculty of Medical Technology, Mahidol University, Bangkok, 10700 Thailand
| | - Watshara Shoombuatong
- Center of Data Mining and Biomedical Informatics, Faculty of Medical Technology, Mahidol University, Bangkok, 10700, Thailand.
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Bouhlel M, Sahnoun M, Zouari N, Brini F, Saibi W. The metabolic and biochemical mapping of Agave americana leave juice encode their prospective biotechnological uses. Process Biochem 2021. [DOI: 10.1016/j.procbio.2021.07.016] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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13
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Regassa H, Bose D, Mukherjee A. Review of Microorganisms and Their Enzymatic Products for Industrial Bioprocesses. Ind Biotechnol (New Rochelle N Y) 2021. [DOI: 10.1089/ind.2021.0002] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023] Open
Affiliation(s)
- Hailemeleak Regassa
- Faculty of Applied Sciences & Biotechnology, Shoolini University of Biotechnology & Management Sciences, Solan, Himachal Pradesh, India
| | - Debajyoti Bose
- Faculty of Applied Sciences & Biotechnology, Shoolini University of Biotechnology & Management Sciences, Solan, Himachal Pradesh, India
| | - Alivia Mukherjee
- Department of Chemical and Biological Engineering, University of Saskatchewan, Saskatoon, SK, Canada
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Effective bioconversion of feather-waste Keratin by Thermo-Surfactant Stable Alkaline Keratinase produced from Aspergillus sp. DHE7 with promising biotechnological application in detergent formulations. BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY 2021. [DOI: 10.1016/j.bcab.2021.102052] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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15
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Cavello I, Bezus B, Cavalitto S. The keratinolytic bacteria Bacillus cytotoxicus as a source of novel proteases and feather protein hydrolysates with antioxidant activities. J Genet Eng Biotechnol 2021; 19:107. [PMID: 34292436 PMCID: PMC8298642 DOI: 10.1186/s43141-021-00207-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2021] [Accepted: 07/09/2021] [Indexed: 11/10/2022]
Abstract
BACKGROUND Argentina's geothermal areas are niches of a rich microbial diversity. In 2020, species of Bacillus cytotoxicus were isolated for the first time from these types of pristine natural areas. Bacillus cytotoxicus strains demonstrated the capability to grow and degrade chicken feathers with the concomitant production of proteases with keratinolytic activity, enzymes that have multitude of industrial applications. The aim of this research was to study the production of the proteolytic enzymes and its characterization. Also, feather protein hydrolysates produced during fermentation were characterized. RESULTS Among the thermotolerant strains isolated from the Domuyo geothermal area (Neuquén province, Argentina), Bacillus cytotoxicus LT-1 and Oll-15 were selected and put through submerged cultures using feather wastes as sole carbon, nitrogen, and energy source in order to obtain proteolytic enzymes and protein hydrolysates. Complete degradation of feathers was achieved after 48 h. Zymograms demonstrated the presence of several proteolytic enzymes with an estimated molecular weight between 50 and > 120 kDa. Optimum pH and temperatures of Bacillus cytotoxicus LT-1 crude extract were 7.0 and 40 °C, meanwhile for Oll-15 were 7.0 and 50 °C. Crude extracts were inhibited by EDTA and 1,10 phenanthroline indicating the presence of metalloproteases. Feather protein hydrolysates showed an interesting antioxidant potential measured through radical-scavenging and Fe3+-reducing activities. CONCLUSION This work represents an initial approach on the study of the biotechnological potential of proteases produced by Bacillus cytotoxicus. The results demonstrated the importance of continuous search for new biocatalysts with new characteristics and enzymes to be able to cope with the demands in the market.
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Affiliation(s)
- Ivana Cavello
- Centro de Investigación y Desarrollo en Fermentaciones Industriales. Facultad de Ciencias Exactas, Universidad Nacional de la Plata (CINDEFI, CCT La Plata-CONICET, UNLP), Calle 47 y 115, (B1900ASH), La Plata, Argentina.
| | - Brenda Bezus
- Centro de Investigación y Desarrollo en Fermentaciones Industriales. Facultad de Ciencias Exactas, Universidad Nacional de la Plata (CINDEFI, CCT La Plata-CONICET, UNLP), Calle 47 y 115, (B1900ASH), La Plata, Argentina
| | - Sebastián Cavalitto
- Centro de Investigación y Desarrollo en Fermentaciones Industriales. Facultad de Ciencias Exactas, Universidad Nacional de la Plata (CINDEFI, CCT La Plata-CONICET, UNLP), Calle 47 y 115, (B1900ASH), La Plata, Argentina
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16
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Goda DA, Bassiouny AR, Abdel Monem NM, Soliman NA, Abdel-Fattah YR. Feather protein lysate optimization and feather meal formation using YNDH protease with keratinolytic activity afterward enzyme partial purification and characterization. Sci Rep 2021; 11:14543. [PMID: 34267231 PMCID: PMC8282803 DOI: 10.1038/s41598-021-93279-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2020] [Accepted: 06/21/2021] [Indexed: 11/30/2022] Open
Abstract
Incubation parameters used for the creation of a protein lysate from enzymatically degraded waste feathers using crude keratinase produced by the Laceyella sacchari strain YNDH were optimized using the Response Surface Methodology (RSM); amino acids quantification was also estimated. The optimization elevated the total protein to 2089.5 µg/ml through the application of the following optimal conditions: a time of 20.2 h, a feather concentration (conc.) of 3 g%, a keratinase activity of 24.5 U/100 ml, a pH of 10, and a cultivation temperature of 50 °C. The produced Feather Protein Lysate (FPL) was found to be enriched with essential and rare amino acids. Additionally, this YNDH enzyme group was partially purified, and some of its characteristics were studied. Crude enzymes were first concentrated with an Amicon Ultra 10-k centrifugal filter, and then concentrated proteins were applied to a "Q FF" strong anion column chromatography. The partially purified enzyme has an estimated molecular masses ranging from 6 to 10 kDa. The maximum enzyme activity was observed at 70 °C and for a pH of 10.4. Most characteristics of this protease/keratinase group were found to be nearly the same when the activity was measured with both casein and keratin-azure as substrates, suggesting that these three protein bands work together in order to degrade the keratin macromolecule. Interestingly, the keratinolytic activity of this group was not inhibited by ethylenediamine tetraacetic acid (EDTA), phenylmethanesulfonyl fluoride (PMSF), or iron-caused activation, indicating the presence of a mixed serine-metallo enzyme type.
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Affiliation(s)
- Doaa A Goda
- Bioprocess Development Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), City of Scientific Research and Technological Applications (SRTA-City), New Burg El-Arab City, Universities and Research Institutes Zone, Alexandria, 21934, Egypt.
| | - Ahmad R Bassiouny
- Biochemistry Department, Faculty of Science, Alexandria University, Alexandria, Egypt
| | - Nihad M Abdel Monem
- Biochemistry Department, Faculty of Science, Alexandria University, Alexandria, Egypt
| | - Nadia A Soliman
- Bioprocess Development Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), City of Scientific Research and Technological Applications (SRTA-City), New Burg El-Arab City, Universities and Research Institutes Zone, Alexandria, 21934, Egypt
| | - Yasser R Abdel-Fattah
- Bioprocess Development Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), City of Scientific Research and Technological Applications (SRTA-City), New Burg El-Arab City, Universities and Research Institutes Zone, Alexandria, 21934, Egypt
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17
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Purification and biochemical characterization of two novel extracellular keratinases with feather-degradation and hide-dehairing potential. Process Biochem 2021. [DOI: 10.1016/j.procbio.2021.04.009] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
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18
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An Integrative Bioinformatic Analysis for Keratinase Detection in Marine-Derived Streptomyces. Mar Drugs 2021; 19:md19060286. [PMID: 34063876 PMCID: PMC8224001 DOI: 10.3390/md19060286] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2021] [Revised: 05/12/2021] [Accepted: 05/18/2021] [Indexed: 01/08/2023] Open
Abstract
Keratinases present promising biotechnological applications, due to their ability to degrade keratin. Streptomyces appears as one of the main sources of these enzymes, but complete genome sequences of keratinolytic bacteria are still limited. This article reports the complete genomes of three marine-derived streptomycetes that show different levels of feather keratin degradation, with high (strain G11C), low (strain CHD11), and no (strain Vc74B-19) keratinolytic activity. A multi-step bioinformatics approach is described to explore genes encoding putative keratinases in these genomes. Despite their differential keratinolytic activity, multiplatform annotation reveals similar quantities of ORFs encoding putative proteases in strains G11C, CHD11, and Vc74B-19. Comparative genomics classified these putative proteases into 140 orthologous groups and 17 unassigned orthogroup peptidases belonging to strain G11C. Similarity network analysis revealed three network communities of putative peptidases related to known keratinases of the peptidase families S01, S08, and M04. When combined with the prediction of cellular localization and phylogenetic reconstruction, seven putative keratinases from the highly keratinolytic strain Streptomyces sp. G11C are identified. To our knowledge, this is the first multi-step bioinformatics analysis that complements comparative genomics with phylogeny and cellular localization prediction, for the prediction of genes encoding putative keratinases in streptomycetes.
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19
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Bhari R, Kaur M, Singh RS. Optimization and validation of keratinase production by Bacillus aerius NSMk2 in a stirred tank reactor using response surface methodology. SN APPLIED SCIENCES 2021. [DOI: 10.1007/s42452-021-04629-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022] Open
Abstract
Abstract
Keratinase is a robust enzyme that is produced in the presence of keratin substrates. This enzyme has been recognized for its applications in waste management, leather and detergent industries. Our group has isolated a potential keratinase producing strain of Bacillus aerius NSMk2 from poultry dump soil, and its hide dehairing and stain removal applications have been studied. Considering commercial applicability of keratinase, the present study reports the keratinase production in a stirred tank reactor (5 l). Central composite rotatable design of response surface methodology (RSM) was employed to study the effect of most influencing process variables, i.e., aeration (0.5–1.5 vvm), agitation (150–350 rpm) and incubation period (24–48 h) on keratinase production. The quadratic model predicted 15 experimental runs, and the influence of independent variables and their interaction on keratinase production were interpreted using analysis of variance (ANOVA) and t-test statistics. Coefficient of determination (R2) value close to 1 and Fisher F-value of 3743.77 showed good fit of experimental data to second-order polynomial equation. A reasonable agreement between experimental and predicted values showed the accuracy of deduced model. Applying the desirability function, aeration rate of 1.0 vvm, agitation rate of 276.88 rpm and incubation period of 33.68 h supported maximum keratinase production (318.38 U/ml). Confirmatory experiments were performed to evaluate the accuracy of desirability function. Maximum keratinase activity of 318.11 U/ml close to predicted value (318.38 U/ml) validates the model. The present study provides useful guidelines for large-scale production of keratinase that can be used for various commercial applications.
Article highlights
Keratinase production was optimized in a stirred tank reactor by RSM.
The influence of aeration, agitation and incubation period on keratinase production was studied.
A significant increase in keratinase production was observed at 1.0 vvm aeration and 276.88 rpm agitation after 33.68 h.
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Yahaya RSR, Normi YM, Phang LY, Ahmad SA, Abdullah JO, Sabri S. Molecular strategies to increase keratinase production in heterologous expression systems for industrial applications. Appl Microbiol Biotechnol 2021; 105:3955-3969. [PMID: 33937928 DOI: 10.1007/s00253-021-11321-y] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2021] [Revised: 04/20/2021] [Accepted: 04/26/2021] [Indexed: 12/19/2022]
Abstract
Keratinase is an important enzyme that can degrade recalcitrant keratinous wastes to form beneficial recyclable keratin hydrolysates. Keratinase is not only important as an alternative to reduce environmental pollution caused by chemical treatments of keratinous wastes, but it also has industrial significance. Currently, the bioproduction of keratinase from native keratinolytic host is considered low, and this hampers large-scale usage of the enzyme. Straightforward approaches of cloning and expression of recombinant keratinases from native keratinolytic host are employed to elevate the amount of keratinase produced. However, this is still insufficient to compensate for the lack of its large-scale production to meet the industrial demands. Hence, this review aimed to highlight the various sources of keratinase and the strategies to increase its production in native keratinolytic hosts. Molecular strategies to increase the production of recombinant keratinase such as plasmid selection, promoter engineering, chromosomal integration, signal peptide and propeptide engineering, codon optimization, and glycoengineering were also described. These mentioned strategies have been utilized in heterologous expression hosts, namely, Escherichia coli, Bacillus sp., and Pichia pastoris, as they are most widely used for the heterologous propagations of keratinases to further intensify the production of recombinant keratinases adapted to better suit the large-scale demand for them. KEY POINTS: • Molecular strategies to enhance keratinase production in heterologous hosts. • Construction of a prominent keratinolytic host from a native strain. • Patent analysis of keratinase production shows rapid high interest in molecular field.
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Affiliation(s)
- Radin Shafierul Radin Yahaya
- Enzyme and Microbial Technology Research Centre, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
| | - Yahaya M Normi
- Enzyme and Microbial Technology Research Centre, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
- Department of Cell and Molecular Biology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
| | - Lai Yee Phang
- Department of Bioprocess Technology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
| | - Siti Aqlima Ahmad
- Department of Biochemistry, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
| | - Janna Ong Abdullah
- Department of Cell and Molecular Biology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia
| | - Suriana Sabri
- Enzyme and Microbial Technology Research Centre, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia.
- Department of Microbiology, Faculty of Biotechnology and Biomolecular Sciences, Universiti Putra Malaysia, UPM, 43400, Serdang, Selangor, Malaysia.
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21
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Ben Elhoul M, Zaraî Jaouadi N, Bouacem K, Allala F, Rekik H, Mechri S, Khemir Ezzine H, Miled N, Jaouadi B. Heterologous expression and purification of keratinase from Actinomadura viridilutea DZ50: feather biodegradation and animal hide dehairing bioprocesses. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:9921-9934. [PMID: 33159682 DOI: 10.1007/s11356-020-11371-1] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/02/2020] [Accepted: 10/21/2020] [Indexed: 06/11/2023]
Abstract
The keratin-degrading bacterium Actinomadura viridilutea DZ50 secretes a keratinase (KERDZ) with potential industrial interest. Here, the kerDZ gene was extracellularly expressed in Escherichia coli BL21(DE3)pLysS using pTrc99A vector. The recombinant enzyme (rKERDZ) was purified and biochemically characterized. Results showed that the native and recombinant keratinases have similar biochemical characteristics. The conventional dehairing with lime and sodium sulfide degrades the hair to the extent that it cannot be recovered. Thus, these chemical processes become a major contributor to wastewater problem and create a lot of environmental concern. The complete dehairing was achieved with 2000 U/mL rKERDZ for 10 h at 40 °C. In fact, keratinase assisted dehairing entirely degraded chicken feather (45 mg) and removed wool/hair from rabbit, sheep, goat, or bovine' hides (1.6 kg) while preserving the collagen structure. The enzymatic process is the eco-friendly option that reduces biological (BOD) (50%) and chemical (COD) oxygen demands (60%) in leather processing. Consequently, the enzymatic hair removal process could solve the problem of post-treatments encountering the traditional leather processing. The enzymatic (rKERDZ) dehaired leather was analyzed by scanning electron microscopic (SEM) studies, which revealed similar fiber orientation and compactness compared with control sample. Those properties support that the rKERDZ enzyme-mediated process is greener to some extent than the traditional one.
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Affiliation(s)
- Mouna Ben Elhoul
- Laboratory of Microbial Biotechnology, Enzymatic, and Biomolecules (LMBEB), Centre of Biotechnology of Sfax (CBS), University of Sfax, Road of Sidi Mansour Km 6, P.O. Box 1177, 3018, Sfax, Tunisia
- Biotech ECOZYM Start-up, Business Incubator, Centre of Biotechnology of Sfax (CBS), University of Sfax, Road of Sidi Mansour Km 6, P.O. Box 1177, 3018, Sfax, Tunisia
| | - Nadia Zaraî Jaouadi
- Laboratory of Microbial Biotechnology, Enzymatic, and Biomolecules (LMBEB), Centre of Biotechnology of Sfax (CBS), University of Sfax, Road of Sidi Mansour Km 6, P.O. Box 1177, 3018, Sfax, Tunisia
- Biotech ECOZYM Start-up, Business Incubator, Centre of Biotechnology of Sfax (CBS), University of Sfax, Road of Sidi Mansour Km 6, P.O. Box 1177, 3018, Sfax, Tunisia
| | - Khelifa Bouacem
- Laboratory of Cellular and Molecular Biology (LCMB), Microbiology Team, Faculty of Biological Sciences, University of Sciences and Technology of Houari Boumediene (USTHB), P.O. Box 32, El Alia, Bab Ezzouar, 16111, Algiers, Algeria
| | - Fawzi Allala
- Laboratory of Cellular and Molecular Biology (LCMB), Microbiology Team, Faculty of Biological Sciences, University of Sciences and Technology of Houari Boumediene (USTHB), P.O. Box 32, El Alia, Bab Ezzouar, 16111, Algiers, Algeria
| | - Hatem Rekik
- Laboratory of Microbial Biotechnology, Enzymatic, and Biomolecules (LMBEB), Centre of Biotechnology of Sfax (CBS), University of Sfax, Road of Sidi Mansour Km 6, P.O. Box 1177, 3018, Sfax, Tunisia
- Biotech ECOZYM Start-up, Business Incubator, Centre of Biotechnology of Sfax (CBS), University of Sfax, Road of Sidi Mansour Km 6, P.O. Box 1177, 3018, Sfax, Tunisia
| | - Sondes Mechri
- Laboratory of Microbial Biotechnology, Enzymatic, and Biomolecules (LMBEB), Centre of Biotechnology of Sfax (CBS), University of Sfax, Road of Sidi Mansour Km 6, P.O. Box 1177, 3018, Sfax, Tunisia
| | - Haifa Khemir Ezzine
- National Leather and Shoe Center (CNCC), 17, Road of leather, Z.I. Sidi Rezig, 2033, Ben Arous, Tunisia
| | - Neila Miled
- National Leather and Shoe Center (CNCC), 17, Road of leather, Z.I. Sidi Rezig, 2033, Ben Arous, Tunisia
| | - Bassem Jaouadi
- Laboratory of Microbial Biotechnology, Enzymatic, and Biomolecules (LMBEB), Centre of Biotechnology of Sfax (CBS), University of Sfax, Road of Sidi Mansour Km 6, P.O. Box 1177, 3018, Sfax, Tunisia.
- Biotech ECOZYM Start-up, Business Incubator, Centre of Biotechnology of Sfax (CBS), University of Sfax, Road of Sidi Mansour Km 6, P.O. Box 1177, 3018, Sfax, Tunisia.
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Santos AF, Souza TFO, Freire DMG, Seldin L, Branquinha MH, Santos ALS. Halobacillus blutaparonensis Strain M9 as a Source of Extracellular Serine Peptidases with Properties for Biotechnological Purposes. Microbiology (Reading) 2021. [DOI: 10.1134/s0026261721010094] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
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23
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Nnolim NE, Udenigwe CC, Okoh AI, Nwodo UU. Microbial Keratinase: Next Generation Green Catalyst and Prospective Applications. Front Microbiol 2020; 11:580164. [PMID: 33391200 PMCID: PMC7775373 DOI: 10.3389/fmicb.2020.580164] [Citation(s) in RCA: 38] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2020] [Accepted: 11/30/2020] [Indexed: 12/18/2022] Open
Abstract
The search for novel renewable products over synthetics hallmarked this decade and those of the recent past. Most economies that are prospecting on biodiversity for improved bio-economy favor renewable resources over synthetics for the potential opportunity they hold. However, this field is still nascent as the bulk of the available resources are non-renewable based. Microbial metabolites, emphasis on secondary metabolites, are viable alternatives; nonetheless, vast microbial resources remain under-exploited; thus, the need for a continuum in the search for new products or bio-modifying existing products for novel functions through an efficient approach. Environmental distress syndrome has been identified as a factor that influences the emergence of genetic diversity in prokaryotes. Still, the process of how the change comes about is poorly understood. The emergence of new traits may present a high prospect for the industrially viable organism. Microbial enzymes have prominence in the bio-economic space, and proteases account for about sixty percent of all enzyme market. Microbial keratinases are versatile proteases which are continuously gaining momentum in biotechnology owing to their effective bio-conversion of recalcitrant keratin-rich wastes and sustainable implementation of cleaner production. Keratinase-assisted biodegradation of keratinous materials has revitalized the prospects for the utilization of cost-effective agro-industrial wastes, as readily available substrates, for the production of high-value products including amino acids and bioactive peptides. This review presented an overview of keratin structural complexity, the potential mechanism of keratin biodegradation, and the environmental impact of keratinous wastes. Equally, it discussed microbial keratinase; vis-à-vis sources, production, and functional properties with considerable emphasis on the ecological implication of microbial producers and catalytic tendency improvement strategies. Keratinase applications and prospective high-end use, including animal hide processing, detergent formulation, cosmetics, livestock feed, and organic fertilizer production, were also articulated.
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Affiliation(s)
- Nonso E. Nnolim
- SAMRC Microbial Water Quality Monitoring Centre, University of Fort Hare, Alice, South Africa
- Applied and Environmental Microbiology Research Group (AEMREG), Department of Biochemistry and Microbiology, University of Fort Hare, Alice, South Africa
| | - Chibuike C. Udenigwe
- School of Nutrition Sciences, Faculty of Health Sciences, University of Ottawa, Ottawa, ON, Canada
| | - Anthony I. Okoh
- SAMRC Microbial Water Quality Monitoring Centre, University of Fort Hare, Alice, South Africa
- Applied and Environmental Microbiology Research Group (AEMREG), Department of Biochemistry and Microbiology, University of Fort Hare, Alice, South Africa
| | - Uchechukwu U. Nwodo
- SAMRC Microbial Water Quality Monitoring Centre, University of Fort Hare, Alice, South Africa
- Applied and Environmental Microbiology Research Group (AEMREG), Department of Biochemistry and Microbiology, University of Fort Hare, Alice, South Africa
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Srivastava B, Singh H, Khatri M, Singh G, Arya SK. Immobilization of keratinase on chitosan grafted-β-cyclodextrin for the improvement of the enzyme properties and application of free keratinase in the textile industry. Int J Biol Macromol 2020; 165:1099-1110. [DOI: 10.1016/j.ijbiomac.2020.10.009] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2020] [Revised: 09/26/2020] [Accepted: 10/01/2020] [Indexed: 12/31/2022]
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25
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Microbial enzymes catalyzing keratin degradation: Classification, structure, function. Biotechnol Adv 2020; 44:107607. [PMID: 32768519 PMCID: PMC7405893 DOI: 10.1016/j.biotechadv.2020.107607] [Citation(s) in RCA: 81] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2020] [Revised: 07/29/2020] [Accepted: 07/30/2020] [Indexed: 12/11/2022]
Abstract
Keratin is an insoluble and protein-rich epidermal material found in e.g. feather, wool, hair. It is produced in substantial amounts as co-product from poultry processing plants and pig slaughterhouses. Keratin is packed by disulfide bonds and hydrogen bonds. Based on the secondary structure, keratin can be classified into α-keratin and β-keratin. Keratinases (EC 3.4.-.- peptide hydrolases) have major potential to degrade keratin for sustainable recycling of the protein and amino acids. Currently, the known keratinolytic enzymes belong to at least 14 different protease families: S1, S8, S9, S10, S16, M3, M4, M14, M16, M28, M32, M36, M38, M55 (MEROPS database). The various keratinolytic enzymes act via endo-attack (proteases in families S1, S8, S16, M4, M16, M36), exo-attack (proteases in families S9, S10, M14, M28, M38, M55) or by action only on oligopeptides (proteases in families M3, M32), respectively. Other enzymes, particularly disulfide reductases, also play a key role in keratin degradation as they catalyze the breakage of disulfide bonds for better keratinase catalysis. This review aims to contribute an overview of keratin biomass as an enzyme substrate and a systematic analysis of currently sequenced keratinolytic enzymes and their classification and reaction mechanisms. We also summarize and discuss keratinase assays, available keratinase structures and finally examine the available data on uses of keratinases in practical biorefinery protein upcycling applications.
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Kshetri P, Roy SS, Chanu SB, Singh TS, Tamreihao K, Sharma SK, Ansari MA, Prakash N. Valorization of chicken feather waste into bioactive keratin hydrolysate by a newly purified keratinase from Bacillus sp. RCM-SSR-102. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2020; 273:111195. [PMID: 32771848 DOI: 10.1016/j.jenvman.2020.111195] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2020] [Revised: 07/27/2020] [Accepted: 08/02/2020] [Indexed: 06/11/2023]
Abstract
The objective of this study is the characterization of a keratinase from Bacillus sp.RCM-SSR-102 and its application in the preparation of keratin hydrolysate from chicken feather waste. The purified KER102 keratinase was characterized as a serine-metallo protease having a molecular weight of 30 kDa with optimum pH and temperature of 10 and 50 °C respectively. The keratinase could retain 98% activity at pH 10 and above and 55% activity at 20% salt concentration. The KER102 keratinase was found to be stable in the presence of oxidizing agents, surfactants and organic solvents. The keratinase could also hydrolyze both soluble and insoluble complex protein substrates. The KER102 keratinase could hydrolyze up to 5% (w/v) feather releasing 1.7 ± 0.19 mg/mL soluble peptides. The feather keratin hydrolysate (FKH) had both antioxidant and antityrosinase activity. The IC50 value of FKH in 2, 2-diphenyl 1-picrylhydrazyl (DPPH) radical scavenging activity (1.02 ± 0.01 mg/mL), 2'-azino-bis-3-ethylbenzothiazoline-6-sulphonic acid (ABTS) radical scavenging activity (20 ± +00.04 μg/mL) and anti-tyrosinase activity (1.2 ± 0.22 mg/mL) was recorded. The FKH also had DNA protecting ability against oxidative damage. Antioxidant and anti-tyrosinase compounds have potential applications in the pharmaceutical and cosmeceutical industry. Hence, the purified keratinase can be a potential candidate for the production of antioxidant and antityrosinase compounds from chicken feather waste.
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Affiliation(s)
- Pintubala Kshetri
- ICAR-NEH Quality Analysis Laboratory, ICAR Research Complex for NEH Region, Manipur Centre, Imphal, India
| | - Subhra Saikat Roy
- ICAR-NEH Quality Analysis Laboratory, ICAR Research Complex for NEH Region, Manipur Centre, Imphal, India.
| | | | - Thangjam Surchandra Singh
- ICAR-NEH Quality Analysis Laboratory, ICAR Research Complex for NEH Region, Manipur Centre, Imphal, India
| | - K Tamreihao
- ICAR-NEH Quality Analysis Laboratory, ICAR Research Complex for NEH Region, Manipur Centre, Imphal, India
| | - Susheel Kumar Sharma
- ICAR-NEH Quality Analysis Laboratory, ICAR Research Complex for NEH Region, Manipur Centre, Imphal, India
| | - Meraj Alam Ansari
- ICAR-NEH Quality Analysis Laboratory, ICAR Research Complex for NEH Region, Manipur Centre, Imphal, India
| | - Narendra Prakash
- ICAR-NEH Quality Analysis Laboratory, ICAR Research Complex for NEH Region, Manipur Centre, Imphal, India
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González V, Vargas-Straube MJ, Beys-da-Silva WO, Santi L, Valencia P, Beltrametti F, Cámara B. Enzyme Bioprospection of Marine-Derived Actinobacteria from the Chilean Coast and New Insight in the Mechanism of Keratin Degradation in Streptomyces sp. G11C. Mar Drugs 2020; 18:E537. [PMID: 33126528 PMCID: PMC7693968 DOI: 10.3390/md18110537] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2020] [Revised: 10/13/2020] [Accepted: 10/17/2020] [Indexed: 01/10/2023] Open
Abstract
Marine actinobacteria are viewed as a promising source of enzymes with potential technological applications. They contribute to the turnover of complex biopolymers, such as pectin, lignocellulose, chitin, and keratin, being able to secrete a wide variety of extracellular enzymes. Among these, keratinases are a valuable alternative for recycling keratin-rich waste, which is generated in large quantities by the poultry industry. In this work, we explored the biocatalytic potential of 75 marine-derived actinobacterial strains, focusing mainly on the search for keratinases. A major part of the strains secreted industrially important enzymes, such as proteases, lipases, cellulases, amylases, and keratinases. Among these, we identified two streptomycete strains that presented great potential for recycling keratin wastes-Streptomyces sp. CHA1 and Streptomyces sp. G11C. Substrate concentration, incubation temperature, and, to a lesser extent, inoculum size were found to be important parameters that influenced the production of keratinolytic enzymes in both strains. In addition, proteomic analysis of culture broths from Streptomyces sp. G11C on turkey feathers showed a high abundance and diversity of peptidases, belonging mainly to the serine and metallo-superfamilies. Two proteases from families S08 and M06 were highly expressed. These results contributed to elucidate the mechanism of keratin degradation mediated by streptomycetes.
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Affiliation(s)
- Valentina González
- Laboratorio de Microbiología Molecular y Biotecnología Ambiental, Departamento de Química y Centro de Biotecnología Daniel Alkalay Lowitt, Universidad Técnica Federico Santa María, Valparaíso 2340000, Chile; (V.G.); (M.J.V.-S.)
| | - María José Vargas-Straube
- Laboratorio de Microbiología Molecular y Biotecnología Ambiental, Departamento de Química y Centro de Biotecnología Daniel Alkalay Lowitt, Universidad Técnica Federico Santa María, Valparaíso 2340000, Chile; (V.G.); (M.J.V.-S.)
| | - Walter O. Beys-da-Silva
- Faculdade de Farmácia, Universidade Federal do Rio Grande do Sul, Porto Alegre, RS 90610-000, Brazil; (W.O.B.-d.-S.); (L.S.)
| | - Lucélia Santi
- Faculdade de Farmácia, Universidade Federal do Rio Grande do Sul, Porto Alegre, RS 90610-000, Brazil; (W.O.B.-d.-S.); (L.S.)
| | - Pedro Valencia
- Laboratorio de Biocatálisis y Procesamiento de Alimentos, Departamento de Ingeniería Química y Ambiental, Universidad Técnica Federico Santa María, Valparaíso 2340000, Chile;
| | | | - Beatriz Cámara
- Laboratorio de Microbiología Molecular y Biotecnología Ambiental, Departamento de Química y Centro de Biotecnología Daniel Alkalay Lowitt, Universidad Técnica Federico Santa María, Valparaíso 2340000, Chile; (V.G.); (M.J.V.-S.)
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Gonzalo M, Espersen R, Al‐Soud WA, Cristiano Falco F, Hägglund P, Sørensen SJ, Svensson B, Jacquiod S. Azo dying of α-keratin material improves microbial keratinase screening and standardization. Microb Biotechnol 2020; 13:984-996. [PMID: 32110845 PMCID: PMC7264887 DOI: 10.1111/1751-7915.13541] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2019] [Revised: 01/17/2020] [Accepted: 01/17/2020] [Indexed: 11/30/2022] Open
Abstract
Microbial conversion through enzymatic reactions has received a lot of attention as a cost-effective and environmentally friendly way to recover amino acids and short peptides from keratin materials. However, accurate assessment of microbial keratinase activity is not straightforward, and current available methods lack sensitivity and standardization. Here, we suggest an optimized Azokeratin assay, with substrate generated directly from azo-dyed raw keratin material. We introduced supernatant filtration in the protocol for optimal stopping of keratinase reactions instead of the widely used trichloroacetic acid (TCA), as it generated biases and impacted the sensitivity. We furthermore suggest a method for standardization of keratinase activity signals using proteinase K, a well-known keratinase, as a reference enabling reproducibility between studies. Lastly, we evaluated our developed method with several bacterial isolates through benchmarking against a commercial assay (Keratin Azure). Under different setups, the Azokeratin method was more sensitive than commonly used Keratin Azure-based assays (3-fold). We argue that this method could be applied with any type of keratin substrate, enabling more robust and sensitive results which can be used for further comparison with other studies, thus representing an important progress within the field of microbial keratin degradation.
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Affiliation(s)
- Milena Gonzalo
- Section of MicrobiologyUniversity of CopenhagenDK‐2100CopenhagenDenmark
- Present address:
Interactions Arbres/Micro‐organismesINRA/Univ. de LorraineChampenouxFrance
| | - Roall Espersen
- Department of Biotechnology and BiomedicineTechnical University of DenmarkDK‐2800LyngbyDenmark
| | - Waleed A. Al‐Soud
- Section of MicrobiologyUniversity of CopenhagenDK‐2100CopenhagenDenmark
| | - Francesco Cristiano Falco
- Department of Chemical and Biochemical EngineeringTechnical University of DenmarkDK‐2800LyngbyDenmark
| | - Per Hägglund
- Department of Biotechnology and BiomedicineTechnical University of DenmarkDK‐2800LyngbyDenmark
- Present address:
Department of Biomedical SciencesPanum Institute 12.6University of CopenhagenCopenhagenDenmark
| | - Søren J. Sørensen
- Section of MicrobiologyUniversity of CopenhagenDK‐2100CopenhagenDenmark
| | - Birte Svensson
- Department of Biotechnology and BiomedicineTechnical University of DenmarkDK‐2800LyngbyDenmark
| | - Samuel Jacquiod
- Section of MicrobiologyUniversity of CopenhagenDK‐2100CopenhagenDenmark
- Present address:
AgroécologieAgroSup DijonINRAEUniv. BourgogneUniv. Bourgogne Franche‐ComtéF‐21000DijonFrance
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Hassan MA, Abol-Fotouh D, Omer AM, Tamer TM, Abbas E. Comprehensive insights into microbial keratinases and their implication in various biotechnological and industrial sectors: A review. Int J Biol Macromol 2020; 154:567-583. [PMID: 32194110 DOI: 10.1016/j.ijbiomac.2020.03.116] [Citation(s) in RCA: 38] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2019] [Revised: 03/11/2020] [Accepted: 03/13/2020] [Indexed: 12/25/2022]
Abstract
Enormous masses of keratinous wastes are annually accumulated in the environment as byproducts of poultry processing and agricultural wastes. Keratin is a recalcitrant fibrous protein, which represents the major constituent of various keratin-rich wastes, which released into the environment in the form of feathers, hair, wool, bristle, and hooves. Chemical treatment methods of these wastes resulted in developing many hazardous gases and toxins to the public health, in addition to the destruction of several amino acids. Accordingly, microbial keratinases have been drawing much interest as an eco-friendly approach to convert keratinous wastes into valuable products. Numerous keratinolytic microorganisms have been identified, which revealed the competence to hydrolyze keratins into peptides and amino acids. Several types of keratinolytic proteases have been produced that possess diverse biochemical characteristics, conferring them the versatility for implementing in multifarious applications such as detergents, leather and textile industries, animal feeding, and production of bio-fertilizers, in addition to medical and pharmaceutical treatments. This review article emphasizes the significance of keratinases and keratinase based-products via comprehensive insights into the keratin structure, diversity of keratinolytic microorganisms, and mechanisms of keratin hydrolysis. Furthermore, we discuss the biochemical properties of the produced keratinases and their feasible applications in diverse disciplines.
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Affiliation(s)
- Mohamed A Hassan
- Protein Research Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), City of Scientific Research and Technological Applications (SRTA-City), New Borg El-Arab City, P.O. Box: 21934, Alexandria, Egypt.
| | - Deyaa Abol-Fotouh
- Electronic Materials Researches Department, Advanced Technology and New Materials Research Institute (ATNMRI), City of Scientific Research and Technological Applications (SRTA-City), New Borg El-Arab City, P.O. Box: 21934, Alexandria, Egypt
| | - Ahmed M Omer
- Polymer Materials Research Department, Advanced Technology and New Materials Research Institute (ATNMRI), City of Scientific Research and Technological Applications (SRTA-City), New Borg El-Arab City, P.O. Box: 21934, Alexandria, Egypt
| | - Tamer M Tamer
- Polymer Materials Research Department, Advanced Technology and New Materials Research Institute (ATNMRI), City of Scientific Research and Technological Applications (SRTA-City), New Borg El-Arab City, P.O. Box: 21934, Alexandria, Egypt
| | - Eman Abbas
- Zoology Department, Faculty of Science, Alexandria University, Alexandria, Egypt
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Challenges and Opportunities in Identifying and Characterising Keratinases for Value-Added Peptide Production. Catalysts 2020. [DOI: 10.3390/catal10020184] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023] Open
Abstract
Keratins are important structural proteins produced by mammals, birds and reptiles. Keratins usually act as a protective barrier or a mechanical support. Millions of tonnes of keratin wastes and low value co-products are generated every year in the poultry, meat processing, leather and wool industries. Keratinases are proteases able to breakdown keratin providing a unique opportunity of hydrolysing keratin materials like mammalian hair, wool and feathers under mild conditions. These mild conditions ameliorate the problem of unwanted amino acid modification that usually occurs with thermochemical alternatives. Keratinase hydrolysis addresses the waste problem by producing valuable peptide mixes. Identifying keratinases is an inherent problem associated with the search for new enzymes due to the challenge of predicting protease substrate specificity. Here, we present a comprehensive review of twenty sequenced peptidases with keratinolytic activity from the serine protease and metalloprotease families. The review compares their biochemical activities and highlights the difficulties associated with the interpretation of these data. Potential applications of keratinases and keratin hydrolysates generated with these enzymes are also discussed. The review concludes with a critical discussion of the need for standardized assays and increased number of sequenced keratinases, which would allow a meaningful comparison of the biochemical traits, phylogeny and keratinase sequences. This deeper understanding would facilitate the search of the vast peptidase family sequence space for novel keratinases with industrial potential.
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Li Q. Progress in Microbial Degradation of Feather Waste. Front Microbiol 2019; 10:2717. [PMID: 31866957 PMCID: PMC6906142 DOI: 10.3389/fmicb.2019.02717] [Citation(s) in RCA: 43] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2019] [Accepted: 11/08/2019] [Indexed: 12/31/2022] Open
Abstract
Feathers are a major by-product of the poultry industry. They are mainly composed of keratins which have wide applications in different fields. Due to the increasing production of feathers from poultry industries, the untreated feathers could become pollutants because of their resistance to protease degradation. Feathers are rich in amino acids, which makes them a valuable source for fertilizer and animal feeds. Numerous bacteria and fungi exhibited capabilities to degrade chicken feathers by secreting enzymes such as keratinases, and accumulated evidence shows that feather-containing wastes can be converted into value-added products. This review summarizes recent progress in microbial degradation of feathers, structures of keratinases, feather application, and microorganisms that are able to secrete keratinase. In addition, the enzymes critical for keratin degradation and their mechanism of action are discussed. We also proposed the strategy that can be utilized for feather degradation. Based on the accumulated studies, microbial degradation of feathers has great potential to convert them into various products such as biofertilizer and animal feeds.
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Affiliation(s)
- Qingxin Li
- Guangdong Bioengineering Institute (Guangzhou Sugarcane Industry Research Institute), Guangdong Academy of Sciences, Guangzhou, China
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32
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Akanuma S, Bessho M, Kimura H, Furukawa R, Yokobori SI, Yamagishi A. Establishment of mesophilic-like catalytic properties in a thermophilic enzyme without affecting its thermal stability. Sci Rep 2019; 9:9346. [PMID: 31249343 PMCID: PMC6597716 DOI: 10.1038/s41598-019-45560-x] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2019] [Accepted: 06/10/2019] [Indexed: 01/19/2023] Open
Abstract
Thermophilic enzymes are generally more thermally stable but are less active at moderate temperatures than are their mesophilic counterparts. Thermophilic enzymes with improved low-temperature activity that retain their high stability would serve as useful tools for industrial processes especially when robust biocatalysts are required. Here we show an effective way to explore amino acid substitutions that enhance the low-temperature catalytic activity of a thermophilic enzyme, based on a pairwise sequence comparison of thermophilic/mesophilic enzymes. One or a combination of amino acid(s) in 3-isopropylmalate dehydrogenase from the extreme thermophile Thermus thermophilus was/were substituted by a residue(s) found in the Escherichia coli enzyme at the same position(s). The best mutant, which contained three amino acid substitutions, showed a 17-fold higher specific activity at 25 °C compared to the original wild-type enzyme while retaining high thermal stability. The kinetic and thermodynamic parameters of the mutant showed similar patterns along the reaction coordinate to those of the mesophilic enzyme. We also analyzed the residues at the substitution sites from a structural and phylogenetic point of view.
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Affiliation(s)
- Satoshi Akanuma
- Faculty of Human Sciences, Waseda University, 2-579-15 Mikajima, Tokorozawa, Saitama, 359-1192, Japan.
| | - Mizumo Bessho
- Department of Applied Life Sciences, Tokyo University of Pharmacy and Life Sciences, 1432-1 Horinouchi, Hachioji, Tokyo, 192-0392, Japan
| | - Hikono Kimura
- Department of Applied Life Sciences, Tokyo University of Pharmacy and Life Sciences, 1432-1 Horinouchi, Hachioji, Tokyo, 192-0392, Japan
| | - Ryutaro Furukawa
- Faculty of Human Sciences, Waseda University, 2-579-15 Mikajima, Tokorozawa, Saitama, 359-1192, Japan.,Department of Applied Life Sciences, Tokyo University of Pharmacy and Life Sciences, 1432-1 Horinouchi, Hachioji, Tokyo, 192-0392, Japan
| | - Shin-Ichi Yokobori
- Department of Applied Life Sciences, Tokyo University of Pharmacy and Life Sciences, 1432-1 Horinouchi, Hachioji, Tokyo, 192-0392, Japan
| | - Akihiko Yamagishi
- Department of Applied Life Sciences, Tokyo University of Pharmacy and Life Sciences, 1432-1 Horinouchi, Hachioji, Tokyo, 192-0392, Japan
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Salwan R, Sharma V. Trends in extracellular serine proteases of bacteria as detergent bioadditive: alternate and environmental friendly tool for detergent industry. Arch Microbiol 2019; 201:863-877. [PMID: 31025057 DOI: 10.1007/s00203-019-01662-8] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2018] [Revised: 11/20/2018] [Accepted: 04/15/2019] [Indexed: 02/07/2023]
Abstract
Proteases, one of the largest groups of industrial enzymes occupy a major share in detergent industry. To meet the existing demands, proteases with efficient catalytic properties are being explored from bacteria residing in extreme habitats. Alkaline proteases are also considered as promising candidates for industrial sectors due to the activity and stability under alkaline and harsh environment. Therefore, a systematic review on experimental studies of bacterial proteases was conducted with emphasis on purification, characterization, cloning and expression and their suitability as detergent additive. Relevant searches using a combination of filters/keywords were performed in the online databases; PubMed, Science Direct, Scopus and Web of Science. Over thousands of research papers, 71 articles in Scopus, 48 articles in Science Direct, 18 articles in PubMed and 8 articles in Web of Science were selected with regard to bacterial extracellular proteases till date. Selected articles revealed majority of the studies conducted between the years 2015 and 17 and were focused on purification of proteases from bacteria. Among microbes, a total of 41 bacterial genera have been explored with limited studies from extreme habitats. Majority of the studies have reported the involvement of subtilisin-like serine proteases with effective properties for detergent industries. The studies revealed shifting of trend from purification to cloning to genetic engineering to meet the industrial demands. The present systematic review describes the proteases from extremophilic bacteria and use of biotechnological techniques such as site-directed mutagenesis and codon optimization to engineer enzymes with better hot spots in the active sites to meet industrial challenges.
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Affiliation(s)
- Richa Salwan
- College of Horticulture and Forestry, Dr. YSP- University of Horticulture and Forestry, Neri, Hamirpur, HP, 177 001, India. .,University Centre for Research and Development, Chandigarh University, Gharuan, Mohali, PB, 140 413, India.
| | - Vivek Sharma
- University Centre for Research and Development, Chandigarh University, Gharuan, Mohali, PB, 140 413, India.
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Muhammad A, Bokhari SAI, Vernoux JP, Ali MI, Faryal R, Desmasures N, Imran M. Purification, Characterization and Thermodynamic Assessment of an Alkaline Protease by Geotrichum Candidum of Dairy Origin. IRANIAN JOURNAL OF BIOTECHNOLOGY 2019; 17:e2042. [PMID: 31457056 PMCID: PMC6697849 DOI: 10.21859/ijb.2042] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Background Alkaline proteases is the important group of enzymes having numerous industrial applications including dairy food formulations. Objectives The current study deals with the purification and characterization of an alkaline serine protease produced by Geotrichum candidum QAUGC01, isolated from indigenous fermented milk product, Dahi. Material and Methods In total twelve G. candidum strains were screened for their proteolytic activity by using standard protease assay. The protease production from G. candidum QAUGC01 was optimized by varying physio-chemical conditions. The protease was purified by using two-step method: ammonium sulfate precipitation and gel filtration chromatography. Protease was further characterized by studying various parameter like temperature, pH, modulators, metal ions and organic solvent. A thermodynamic study was also carried out to explore the half-life of protease. Results The G. candidum grew profusely at 25 °C and at an initial pH of 4.0 for 72 h of incubation producing 26.21 U/ml maximum extracellular protease. Protease revealed that Vmax and Km was 26.25 U.ml-1.min-1 and 0.05 mg.mL-1, respectively using casein as substrate. The enzyme was stable at a temperature range (25-45 °C) and pH (8-9). Residual enzyme activity was strongly inhibited in the presence of PMSF (7.5%). The protease could hydrolyze proteinaceous substrates, casein (98%) and BSA (95%). The thermodynamic studies explored that the half-life of the enzyme that was 106.62 min, 38.72 min and 15.71 min at 50, 60 and 70 °C, respectively. Conclusions Purified protease from G. candidum GCQAU01 is an ideal candidate for industrial application.
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Affiliation(s)
- Abubakar Muhammad
- Department of Microbiology, Faculty of Biological Sciences, Quaid-i-Azam University, Islamabad, Pakistan
| | - Syed Ali Imran Bokhari
- Department of Bioinformatics and Biotechnology, International Islamic University, Islamabad, Pakistan
| | - Jean-Paul Vernoux
- Aliments Bioprocédés Toxicologie Environnement (ABTE), E.A. 4651, Université de Caen Basse-Normandie, Esplanade de la Paix, CAEN Cedex, France
| | - Muhammad Ishtiaq Ali
- Department of Microbiology, Faculty of Biological Sciences, Quaid-i-Azam University, Islamabad, Pakistan
| | - Rani Faryal
- Department of Microbiology, Faculty of Biological Sciences, Quaid-i-Azam University, Islamabad, Pakistan
| | - Nathalie Desmasures
- Aliments Bioprocédés Toxicologie Environnement (ABTE), E.A. 4651, Université de Caen Basse-Normandie, Esplanade de la Paix, CAEN Cedex, France
| | - Muhammad Imran
- Department of Microbiology, Faculty of Biological Sciences, Quaid-i-Azam University, Islamabad, Pakistan
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35
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Falco FC, Espersen R, Svensson B, Gernaey KV, Eliasson Lantz A. An integrated strategy for the effective production of bristle protein hydrolysate by the keratinolytic filamentous bacterium Amycolatopsis keratiniphila D2. WASTE MANAGEMENT (NEW YORK, N.Y.) 2019; 89:94-102. [PMID: 31079763 DOI: 10.1016/j.wasman.2019.03.067] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/11/2018] [Revised: 03/28/2019] [Accepted: 03/29/2019] [Indexed: 06/09/2023]
Abstract
In a conventional microorganism-mediated biological process for degradation of keratinous waste material the production of keratin-specific proteases (i.e., keratinases) and the hydrolysis of keratin-rich residual biomass both take place during the same stage of the bioprocess and, as a consequence, occur simultaneously under suboptimal conditions. In the present study the keratinolytic actinomycete Amycolatopsis keratiniphila D2 was successfully employed to biodegrade thermally pretreated porcine bristles at high solids loading (16% w/v) via a novel cultivation methodology. Indeed, the two-stage submerged fermentation process developed in this work enabled to efficiently recover, in a single unit operation, about 73% of the protein material contained in the keratinous biowaste structure, resulting in an overall accumulation of 89.3 g·L-1 protein-rich hydrolysate and a productivity of 427 mg crude soluble proteins per litre per hour. The obtained protein hydrolysate powder displayed a 2.2-fold increase in its in vitro pepsin digestibility (95%) with respect to the non-hydrolysed pretreated substrate (43%). In addition, the chromatogram obtained by size-exclusion chromatography analysis of the final product indicated that, among the identified fractions, those consisting of small peptides and free amino acids were the most abundantly present inside the analysed sample. Given these facts it is possible to conclude that the soluble proteins, peptides and free amino acids recovered through the newly designed two-stage bioextraction process could represent a viable alternative source of protein in animal feed formulation.
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Affiliation(s)
- Francesco Cristino Falco
- Department of Chemical and Biochemical Engineering, Technical University of Denmark, Søltofts Plads 229, DK-2800 Kgs. Lyngby, Denmark.
| | - Roall Espersen
- Department of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads 221, DK-2800 Kgs. Lyngby, Denmark
| | - Birte Svensson
- Department of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads 221, DK-2800 Kgs. Lyngby, Denmark
| | - Krist V Gernaey
- Department of Chemical and Biochemical Engineering, Technical University of Denmark, Søltofts Plads 229, DK-2800 Kgs. Lyngby, Denmark
| | - Anna Eliasson Lantz
- Department of Chemical and Biochemical Engineering, Technical University of Denmark, Søltofts Plads 229, DK-2800 Kgs. Lyngby, Denmark
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K. V. A. KERATINOLYTIC ENZYMES: PRODUCERS, PHYSICAL AND CHEMICAL PROPERTIES. APPLICATION FOR BIOTECHNOLOGY. BIOTECHNOLOGIA ACTA 2019. [DOI: 10.15407/biotech12.02.027] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
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37
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Hamiche S, Mechri S, Khelouia L, Annane R, El Hattab M, Badis A, Jaouadi B. Purification and biochemical characterization of two keratinases from Bacillus amyloliquefaciens S13 isolated from marine brown alga Zonaria tournefortii with potential keratin-biodegradation and hide-unhairing activities. Int J Biol Macromol 2019; 122:758-769. [DOI: 10.1016/j.ijbiomac.2018.10.174] [Citation(s) in RCA: 37] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2018] [Revised: 10/13/2018] [Accepted: 10/25/2018] [Indexed: 10/28/2022]
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Boran R, Ugur A, Sarac N, Ceylan O. Characterisation of Streptomyces violascens OC125-8 lipase for oily wastewater treatment. 3 Biotech 2019; 9:5. [PMID: 30622843 DOI: 10.1007/s13205-018-1539-x] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2017] [Accepted: 12/16/2018] [Indexed: 11/28/2022] Open
Abstract
In this study, the lipase-producing bacterium Streptomyces violascens (GenBank number MF621564) was identified, and the extracellular S. violascens OC125-8 lipase produced by this strain was characterised for use in wastewater treatment. The lipase was partially purified by ammonium sulphate precipitation at a final yield of 3.28-fold purification and a recovery of 56%. The S. violascens OC125-8 lipase exhibited optimum catalytic activity at 40 °C and pH 8.0; it was stable at 30-40 °C with more than 86% residual activity after 1 h; it was also stable over a relatively broad pH range of pH 7.0-11.0, retaining 83.3-100% activity. V max and K m values were calculated as 0.61 µmol/min/mg and 0.259 mM, respectively. Enzyme activity significantly increased in the presence of Fe2+ ion but was inhibited by Ca2+, Mn2+, Cu2+ and Mg2+. The addition of a serine protease inhibitor, phenylmethylsulfonyl fluoride (PMSF), strongly inhibited enzyme activity while ethylenediaminetetraacetic acid (EDTA), a metal chelating agent, had no inhibitory effect. The enzyme was fairly stable in the presence of surfactants as well as sodium perborate. Examination of commercial detergent tolerance revealed that the lipase was strongly stable in Tursil (88%), Pril (97%) and Fairy (98.5%), while the lipase was activated in Omo (113.4%) and Ariel (128.3%). Moreover, the lipase showed highest activity towards olive oil (100%), sunflower oil (90%) and burned sunflower oil (55%), while corn oil (44%) and burned olive oil (15%) were less hydrolysed by the enzyme. These properties demonstrate that S. violascens OC125-8 lipase is an ideal choice for oily wastewater management.
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Affiliation(s)
- Rukiye Boran
- 1Medical Laboratory Program, Department of Medical Services and Techniques, Vocational School of Health Service, Aksaray University, 68100 Aksaray, Turkey
| | - Aysel Ugur
- 2Section of Medical Microbiology, Department of Basic Sciences, Faculty of Dentistry, Gazi University, 06510 Ankara, Turkey
| | - Nurdan Sarac
- 3Department of Biology, Faculty of Science, Muğla Sıtkı Koçman University, 48000 Mugla, Turkey
| | - Ozgur Ceylan
- 4Food Quality Control and Analysis Program, Ula Ali Koçman Vocational School, Muğla Sıtkı Koçman University, 48147 Mugla, Turkey
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Vineis C, Varesano A, Varchi G, Aluigi A. Extraction and Characterization of Keratin from Different Biomasses. KERATIN AS A PROTEIN BIOPOLYMER 2019. [DOI: 10.1007/978-3-030-02901-2_3] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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40
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Adelere IA, Lateef A. Degradation of Keratin Biomass by Different Microorganisms. KERATIN AS A PROTEIN BIOPOLYMER 2019. [DOI: 10.1007/978-3-030-02901-2_5] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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41
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Tamreihao K, Mukherjee S, Khunjamayum R, Devi LJ, Asem RS, Ningthoujam DS. Feather degradation by keratinolytic bacteria and biofertilizing potential for sustainable agricultural production. J Basic Microbiol 2018; 59:4-13. [DOI: 10.1002/jobm.201800434] [Citation(s) in RCA: 53] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2018] [Revised: 09/18/2018] [Accepted: 09/23/2018] [Indexed: 11/09/2022]
Affiliation(s)
- K. Tamreihao
- Advanced Level State Biotech Hub; Microbial Biotechnology Research Laboratory; Department of Biochemistry; Manipur University; Canchipur India
| | - Saikat Mukherjee
- Advanced Level State Biotech Hub; Microbial Biotechnology Research Laboratory; Department of Biochemistry; Manipur University; Canchipur India
| | - Rakhi Khunjamayum
- Advanced Level State Biotech Hub; Microbial Biotechnology Research Laboratory; Department of Biochemistry; Manipur University; Canchipur India
| | - Laishram Jaya Devi
- Advanced Level State Biotech Hub; Microbial Biotechnology Research Laboratory; Department of Biochemistry; Manipur University; Canchipur India
| | - Roshan Singh Asem
- Advanced Level State Biotech Hub; Microbial Biotechnology Research Laboratory; Department of Biochemistry; Manipur University; Canchipur India
| | - Debananda S. Ningthoujam
- Advanced Level State Biotech Hub; Microbial Biotechnology Research Laboratory; Department of Biochemistry; Manipur University; Canchipur India
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Hammami A, Fakhfakh N, Abdelhedi O, Nasri M, Bayoudh A. Proteolytic and amylolytic enzymes from a newly isolated Bacillus mojavensis SA: Characterization and applications as laundry detergent additive and in leather processing. Int J Biol Macromol 2017; 108:56-68. [PMID: 29180048 DOI: 10.1016/j.ijbiomac.2017.11.148] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2017] [Revised: 11/06/2017] [Accepted: 11/23/2017] [Indexed: 10/18/2022]
Abstract
The present work aims to study the simultaneous production of highly alkaline proteases and thermostable α-amylases by a newly isolated bacterium Bacillus mojavensis SA. The optimum pH and temperature of amylase activity were 9.0 and 55°C, respectively, while those of the proteolytic activity were 12.0 and 60°C, respectively. Both α-amylase and protease enzymes showed a high stability towards a wide range of pH and temperature. Furthermore, SA crude enzymes were relatively stable towards non-ionic (Tween 20, Tween 80 and Triton X-100) and anionic (SDS) surfactants, as well as oxidizing agents. Both activities were improved by the presence of polyethylene glycol 4000 and glycerol. Additionally, the crude enzymes showed excellent stability against various solid and liquid detergents. Wash performance analysis revealed that the SA crude enzymes exhibited a remarkable efficiency in the removal of a variety type of stains, such as blood, chocolate, coffee and oil. On the other side, SA proteases revealed a potential dehairing activity of animal hide without chemical assistance or fibrous proteins hydrolysis. Thus, considering their promising properties, B. mojavensis SA crude enzymes could be used in several biotechnological bioprocesses.
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Affiliation(s)
- Amal Hammami
- Laboratory of Enzyme Engineering and Microbiology, Engineering National School of Sfax (ENIS), University of Sfax, Sfax, Tunisia
| | - Nahed Fakhfakh
- Laboratory of Enzyme Engineering and Microbiology, Engineering National School of Sfax (ENIS), University of Sfax, Sfax, Tunisia.
| | - Ola Abdelhedi
- Laboratory of Enzyme Engineering and Microbiology, Engineering National School of Sfax (ENIS), University of Sfax, Sfax, Tunisia
| | - Moncef Nasri
- Laboratory of Enzyme Engineering and Microbiology, Engineering National School of Sfax (ENIS), University of Sfax, Sfax, Tunisia
| | - Ahmed Bayoudh
- Laboratory of Enzyme Engineering and Microbiology, Engineering National School of Sfax (ENIS), University of Sfax, Sfax, Tunisia
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Ramakrishna Reddy M, Sathi Reddy K, Ranjita Chouhan Y, Bee H, Reddy G. Effective feather degradation and keratinase production by Bacillus pumilus GRK for its application as bio-detergent additive. BIORESOURCE TECHNOLOGY 2017; 243:254-263. [PMID: 28672188 DOI: 10.1016/j.biortech.2017.06.067] [Citation(s) in RCA: 79] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/05/2017] [Revised: 06/10/2017] [Accepted: 06/12/2017] [Indexed: 06/07/2023]
Abstract
An effecient feather-degrading bacterium was isolated from poultry dumping yard and identified as Bacillus pumilus GRK based on 16S rRNA sequencing. Complete feather degradation (98.3±1.52%) with high keratinase production (373±4 U/ml) was observed in 24h under optimized conditions (substrate 1% (w/w); inoculum size 4% (v/v); pH 10; 200rpm at 37°C) with feathers as sole carbon and nitrogen source in tap water. The fermented broth was enriched with amino acids like tryptophan (221.44µg/ml), isoleucine (15.0µg/ml), lysine (10.81µg/ml) and methionine (7.24µg/ml) suggesting its potential use as feed supplement. The keratinase produced was a detergent stable serine protease and its activity was further enhanced by Ca+2 and Mg+2. Bacillus pumilus GRK keratinase was successfully utilised as bioadditive in detergent formulations for removing the blood stains from cloth without affecting its fiber and texture.
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Affiliation(s)
| | - K Sathi Reddy
- Department of Microbiology, Osmania University, Hyderabad 500 007, India
| | - Y Ranjita Chouhan
- Department of Microbiology, Osmania University, Hyderabad 500 007, India
| | - Hameeda Bee
- Department of Microbiology, Osmania University, Hyderabad 500 007, India
| | - Gopal Reddy
- Department of Microbiology, Osmania University, Hyderabad 500 007, India.
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44
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Onwosi CO, Igbokwe VC, Odimba JN, Eke IE, Nwankwoala MO, Iroh IN, Ezeogu LI. Composting technology in waste stabilization: On the methods, challenges and future prospects. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2017; 190:140-157. [PMID: 28040590 DOI: 10.1016/j.jenvman.2016.12.051] [Citation(s) in RCA: 218] [Impact Index Per Article: 31.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2016] [Revised: 12/18/2016] [Accepted: 12/20/2016] [Indexed: 05/22/2023]
Abstract
Composting technology has become invaluable in stabilization of municipal waste due to its environmental compatibility. In this review, different types of composting methods reportedly applied in waste management were explored. Further to that, the major factors such as temperature, pH, C/N ratio, moisture, particle size that have been considered relevant in the monitoring of the composting process were elucidated. Relevant strategies to improve and optimize process effectiveness were also addressed. However, during composting, some challenges such as leachate generation, gas emission and lack of uniformity in assessing maturity indices are imminent. Here in, these challenges were properly addressed and some strategies towards ameliorating them were proffered. Finally, we highlighted some recent technologies that could improve composting.
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Affiliation(s)
- Chukwudi O Onwosi
- Department of Microbiology, Faculty of Biological Sciences, University of Nigeria, Nsukka, Enugu State, Nigeria.
| | - Victor C Igbokwe
- Department of Microbiology, Faculty of Biological Sciences, University of Nigeria, Nsukka, Enugu State, Nigeria
| | - Joyce N Odimba
- Department of Microbiology, Faculty of Biological Sciences, University of Nigeria, Nsukka, Enugu State, Nigeria
| | - Ifeanyichukwu E Eke
- Department of Microbiology, Faculty of Biological Sciences, University of Nigeria, Nsukka, Enugu State, Nigeria
| | - Mary O Nwankwoala
- Department of Microbiology, Faculty of Biological Sciences, University of Nigeria, Nsukka, Enugu State, Nigeria
| | - Ikemdinachi N Iroh
- Department of Microbiology, Faculty of Biological Sciences, University of Nigeria, Nsukka, Enugu State, Nigeria
| | - Lewis I Ezeogu
- Department of Microbiology, Faculty of Biological Sciences, University of Nigeria, Nsukka, Enugu State, Nigeria
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45
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Jin HS, Park SY, Kim K, Lee YJ, Nam GW, Kang NJ, Lee DW. Development of a keratinase activity assay using recombinant chicken feather keratin substrates. PLoS One 2017; 12:e0172712. [PMID: 28231319 PMCID: PMC5322917 DOI: 10.1371/journal.pone.0172712] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2016] [Accepted: 02/08/2017] [Indexed: 12/03/2022] Open
Abstract
Poultry feathers consist mainly of the protein keratin, which is rich in β-pleated sheets and consequently resistant to proteolysis. Although many keratinases have been identified, the reasons for their substrate specificity towards β-keratin remain unclear due to difficulties in preparing a soluble feather keratin substrate for use in activity assays. In the present study, we overexpressed Gallus gallus chromosomes 2 and 27 β-keratin-encoding genes in Escherichia coli, purified denatured recombinant proteins by Ni2+ affinity chromatography, and refolded by stepwise dialysis to yield soluble keratins. To assess the keratinolytic activity, we compared the proteolytic activity of crude extracts from the feather- degrading bacterium Fervidobacterium islandicum AW-1 with proteinase K, trypsin, and papain using purified recombinant keratin and casein as substrates. All tested proteases showed strong proteolytic activities for casein, whereas only F. islandicum AW-1 crude extracts and proteinase K exhibited pronounced keratinolytic activity for the recombinant keratin. Moreover, LC-MS/MS analysis of keratin hydrolysates allowed us to predict the P1 sites of keratinolytic enzymes in the F. islandicum AW-1 extracts, thereby qualifying and quantifying the extent of keratinolysis. The soluble keratin-based assay has clear therapeutic and industrial potential for the development of a high-throughput screening system for proteases hydrolyzing disease-related protein aggregates, as well as mechanically resilient keratin-based polymers.
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Affiliation(s)
- Hyeon-Su Jin
- School of Applied Biosciences, Kyungpook National University, Daegu, South Korea
| | - Seon Yeong Park
- School of Applied Biosciences, Kyungpook National University, Daegu, South Korea
| | - Kyungmin Kim
- School of Applied Biosciences, Kyungpook National University, Daegu, South Korea
| | - Yong-Jik Lee
- School of Applied Biosciences, Kyungpook National University, Daegu, South Korea
| | - Gae-Won Nam
- Department of Cosmetic Science & Technology, Seowon University, Cheongju, South Korea
| | - Nam Joo Kang
- School of Food Science and Biotechnology, Kyungpook National University, Daegu, South Korea
- * E-mail: (DWL); (NJK)
| | - Dong-Woo Lee
- School of Applied Biosciences, Kyungpook National University, Daegu, South Korea
- * E-mail: (DWL); (NJK)
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46
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Isolation, biochemical and genetic characterization of extracellular protease producing cattle hide dehairing bacterium – A potential alternative to chemical dehairing. ACTA ACUST UNITED AC 2017. [DOI: 10.1016/j.egg.2016.11.002] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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47
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A novel alkaline surfactant-stable keratinase with superior feather-degrading potential based on library screening strategy. Int J Biol Macromol 2017; 95:404-411. [DOI: 10.1016/j.ijbiomac.2016.11.045] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2016] [Revised: 11/11/2016] [Accepted: 11/14/2016] [Indexed: 11/22/2022]
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48
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Antunes LP, Martins LF, Pereira RV, Thomas AM, Barbosa D, Lemos LN, Silva GMM, Moura LMS, Epamino GWC, Digiampietri LA, Lombardi KC, Ramos PL, Quaggio RB, de Oliveira JCF, Pascon RC, Cruz JBD, da Silva AM, Setubal JC. Microbial community structure and dynamics in thermophilic composting viewed through metagenomics and metatranscriptomics. Sci Rep 2016; 6:38915. [PMID: 27941956 PMCID: PMC5150989 DOI: 10.1038/srep38915] [Citation(s) in RCA: 125] [Impact Index Per Article: 15.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2016] [Accepted: 11/14/2016] [Indexed: 12/21/2022] Open
Abstract
Composting is a promising source of new organisms and thermostable enzymes that may be helpful in environmental management and industrial processes. Here we present results of metagenomic- and metatranscriptomic-based analyses of a large composting operation in the São Paulo Zoo Park. This composting exhibits a sustained thermophilic profile (50 °C to 75 °C), which seems to preclude fungal activity. The main novelty of our study is the combination of time-series sampling with shotgun DNA, 16S rRNA gene amplicon, and metatranscriptome high-throughput sequencing, enabling an unprecedented detailed view of microbial community structure, dynamics, and function in this ecosystem. The time-series data showed that the turning procedure has a strong impact on the compost microbiota, restoring to a certain extent the population profile seen at the beginning of the process; and that lignocellulosic biomass deconstruction occurs synergistically and sequentially, with hemicellulose being degraded preferentially to cellulose and lignin. Moreover, our sequencing data allowed near-complete genome reconstruction of five bacterial species previously found in biomass-degrading environments and of a novel biodegrading bacterial species, likely a new genus in the order Bacillales. The data and analyses provided are a rich source for additional investigations of thermophilic composting microbiology.
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Affiliation(s)
| | - Layla Farage Martins
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, Brazil
| | | | - Andrew Maltez Thomas
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, Brazil.,Programa de Pós-Graduação Interunidades em Bioinformática, Universidade de São Paulo, São Paulo, Brazil
| | - Deibs Barbosa
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, Brazil.,Programa de Pós-Graduação Interunidades em Bioinformática, Universidade de São Paulo, São Paulo, Brazil
| | - Leandro Nascimento Lemos
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, Brazil.,Programa de Pós-Graduação Interunidades em Bioinformática, Universidade de São Paulo, São Paulo, Brazil
| | - Gianluca Major Machado Silva
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, Brazil.,Programa de Pós-Graduação Interunidades em Bioinformática, Universidade de São Paulo, São Paulo, Brazil
| | - Livia Maria Silva Moura
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, Brazil.,Programa de Pós-Graduação Interunidades em Bioinformática, Universidade de São Paulo, São Paulo, Brazil
| | - George Willian Condomitti Epamino
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, Brazil.,Programa de Pós-Graduação Interunidades em Bioinformática, Universidade de São Paulo, São Paulo, Brazil
| | | | - Karen Cristina Lombardi
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, Brazil
| | | | - Ronaldo Bento Quaggio
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, Brazil
| | | | | | | | - Aline Maria da Silva
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, Brazil.,Programa de Pós-Graduação Interunidades em Bioinformática, Universidade de São Paulo, São Paulo, Brazil
| | - João Carlos Setubal
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, Brazil.,Programa de Pós-Graduação Interunidades em Bioinformática, Universidade de São Paulo, São Paulo, Brazil.,Biocomplexity Institute of Virginia Tech, Blacksburg, VA, USA
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49
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Verma A, Singh H, Anwar MS, Kumar S, Ansari MW, Agrawal S. Production of Thermostable Organic Solvent Tolerant Keratinolytic Protease from Thermoactinomyces sp. RM4: IAA Production and Plant Growth Promotion. Front Microbiol 2016; 7:1189. [PMID: 27555836 PMCID: PMC4974946 DOI: 10.3389/fmicb.2016.01189] [Citation(s) in RCA: 35] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2016] [Accepted: 07/19/2016] [Indexed: 11/13/2022] Open
Abstract
There are several reports about the optimization of protease production, but only few have optimized the production of organic solvent tolerant keratinolytic proteases that show remarkable exploitation in the development of the non-polluting processes in biotechnological industries. The present study was carried with aim to optimize the production of a thermostable organic solvent tolerant keratinolytic protease Thermoactinomyces sp. RM4 utilizing chicken feathers. Thermoactinomyces sp. RM4 isolated from the soil sample collected from a rice mill wasteyard site near Kashipur, Uttrakhand was identified on the basis of 16S rDNA analysis. The production of organic solvent tolerant keratinolytic protease enzyme by Thermoactinomyces sp. RM4 was optimized by varying physical culture conditions such as pH (10.0), temperature (60°C), inoculum percentage (2%), feather concentration (2%) and agitation rate (2 g) for feather degradation. The result showed that Thermoactinomyces sp. RM4 potentially produces extra-cellular thermostable organic solvent tolerant keratinolytic protease in the culture medium. Further, the feather hydrolysate from keratinase production media showed plant growth promoting activity by producing indole-3-acetic acid itself. The present findings suggest that keratinolytic protease from Thermoactinomyces sp. RM4 offers enormous industrial applications due to its organic solvent tolerant property in peptide synthesis, practical role in feather degradation and potential function in plant growth promoting activity, which might be a superior candidate to keep ecosystem healthy and functional.
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Affiliation(s)
- Amit Verma
- Department of Biochemistry, G. B. Pant University of Agriculture and TechnologyPantnagar, India; College of Basic Science & Humanities, Sardarkrushinagar Dantiwada Agricultural UniversityPalanpur, India
| | - Hukum Singh
- Climate Change and Forest Influence Division, Forest Research Institute Dehradun, India
| | - Mohammad S Anwar
- Department of Biotechnology, Bheemtal Campus, Kumaun University Nainital, India
| | - Shailendra Kumar
- Forest Pathology Division, Forest Research Institute Dehradun, India
| | - Mohammad W Ansari
- Department of Botany, Zakir Husain Delhi College, University of Delhi New Delhi, India
| | - Sanjeev Agrawal
- Department of Biochemistry, G. B. Pant University of Agriculture and Technology Pantnagar, India
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50
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Chandrasekaran M, Chandrasekar R, Chun SC, Sathiyabama M. Isolation, characterization and molecular three-dimensional structural predictions of metalloprotease from a phytopathogenic fungus, Alternaria solani (Ell. and Mart.) Sor. J Biosci Bioeng 2016; 122:131-9. [DOI: 10.1016/j.jbiosc.2015.12.021] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2015] [Revised: 12/14/2015] [Accepted: 12/31/2015] [Indexed: 02/09/2023]
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