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Qazi MA, Phulpoto IA, Wang Q, Dai Z. Advances in high-throughput screening approaches for biosurfactants: current trends, bottlenecks and perspectives. Crit Rev Biotechnol 2024; 44:1403-1421. [PMID: 38232958 DOI: 10.1080/07388551.2023.2290981] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2023] [Revised: 03/23/2023] [Accepted: 07/27/2023] [Indexed: 01/19/2024]
Abstract
The market size of biosurfactants (BSs) has been expanding at an extremely fast pace due to their broad application scope. Therefore, the re-construction of cell factories with modified genomic and metabolic profiles for desired industrial performance has been an intriguing aspect. Typical mutagenesis approaches generate huge mutant libraries, whereas a battery of specific, robust, and cost-effective high-throughput screening (HTS) methods is requisite to screen target strains for desired phenotypes. So far, only a few specialized HTS assays have been developed for BSs that were successfully applied to obtain anticipated mutants. The most important milestones to reach, however, continue to be: specificity, sensitivity, throughput, and the potential for automation. Here, we discuss important colorimetric and fluorometric HTS approaches for possible intervention on automated HTS platforms. Moreover, we explain current bottlenecks in developing specialized HTS platforms for screening high-yielding producers and discuss possible perspectives for addressing such challenges.
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Affiliation(s)
- Muneer Ahmed Qazi
- Key Laboratory of Engineering Biology for Low-carbon Manufacturing, Chinese Academy of Sciences, Tianjin, China
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China
- National Center of Technology Innovation for Synthetic Biology, Tianjin, China
- Institute of Microbiology, Faculty of Natural Science, Shah Abdul Latif University, Khairpur, Pakistan
| | - Irfan Ali Phulpoto
- Institute of Microbiology, Faculty of Natural Science, Shah Abdul Latif University, Khairpur, Pakistan
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Qinhong Wang
- Key Laboratory of Engineering Biology for Low-carbon Manufacturing, Chinese Academy of Sciences, Tianjin, China
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China
- National Center of Technology Innovation for Synthetic Biology, Tianjin, China
| | - Zongjie Dai
- Key Laboratory of Engineering Biology for Low-carbon Manufacturing, Chinese Academy of Sciences, Tianjin, China
- Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, Tianjin, China
- National Center of Technology Innovation for Synthetic Biology, Tianjin, China
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Harvey DJ. Analysis of carbohydrates and glycoconjugates by matrix-assisted laser desorption/ionization mass spectrometry: An update for 2019-2020. MASS SPECTROMETRY REVIEWS 2022:e21806. [PMID: 36468275 DOI: 10.1002/mas.21806] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
This review is the tenth update of the original article published in 1999 on the application of matrix-assisted laser desorption/ionization (MALDI) mass spectrometry to the analysis of carbohydrates and glycoconjugates and brings coverage of the literature to the end of 2020. Also included are papers that describe methods appropriate to analysis by MALDI, such as sample preparation techniques, even though the ionization method is not MALDI. The review is basically divided into three sections: (1) general aspects such as theory of the MALDI process, matrices, derivatization, MALDI imaging, fragmentation, quantification and the use of arrays. (2) Applications to various structural types such as oligo- and polysaccharides, glycoproteins, glycolipids, glycosides and biopharmaceuticals, and (3) other areas such as medicine, industrial processes and glycan synthesis where MALDI is extensively used. Much of the material relating to applications is presented in tabular form. The reported work shows increasing use of incorporation of new techniques such as ion mobility and the enormous impact that MALDI imaging is having. MALDI, although invented nearly 40 years ago is still an ideal technique for carbohydrate analysis and advancements in the technique and range of applications show little sign of diminishing.
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Affiliation(s)
- David J Harvey
- Nuffield Department of Medicine, Target Discovery Institute, University of Oxford, Oxford, UK
- Department of Chemistry, University of Oxford, Oxford, Oxfordshire, United Kingdom
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Itkina DL, Suleimanova AD, Sharipova MR. Isolation, Purification, and Identification of the Secretion Compound Pantoea brenneri AS3 with Fungicidal Activity. APPL BIOCHEM MICRO+ 2022. [DOI: 10.1134/s000368382204007x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Solano-González S, Solano-Campos F. Production of mannosylerythritol lipids: biosynthesis, multi-omics approaches, and commercial exploitation. Mol Omics 2022; 18:699-715. [DOI: 10.1039/d2mo00150k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Compilation of resources regarding MEL biosynthesis, key production parameters; available omics resources and current commercial applications, for smut fungi known to produce MELs.
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Affiliation(s)
- Stefany Solano-González
- Universidad Nacional, Escuela de Ciencias Biológicas, Laboratorio de Bioinformática Aplicada, Heredia, Costa Rica
| | - Frank Solano-Campos
- Universidad Nacional, Escuela de Ciencias Biológicas, Laboratorio de Biotecnología de Plantas, Heredia, Costa Rica
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Mishra N, Rana K, Seelam SD, Kumar R, Pandey V, Salimath BP, Agsar D. Characterization and Cytotoxicity of Pseudomonas Mediated Rhamnolipids Against Breast Cancer MDA-MB-231 Cell Line. Front Bioeng Biotechnol 2021; 9:761266. [PMID: 34950641 PMCID: PMC8691732 DOI: 10.3389/fbioe.2021.761266] [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: 08/19/2021] [Accepted: 10/27/2021] [Indexed: 01/08/2023] Open
Abstract
A biosurfactant producing bacterium was identified as Pseudomonas aeruginosa DNM50 based on molecular characterization (NCBI accession no. MK351591). Structural characterization using MALDI-TOF revealed the presence of 12 different congeners of rhamnolipid such as Rha-C8-C8:1, Rha-C10-C8:1, Rha-C10-C10, Rha-C10-C12:1, Rha-C16:1, Rha-C16, Rha-C17:1, Rha-Rha-C10:1-C10:1, Rha-Rha-C10-C12, Rha-Rha-C10-C8, Rha-Rha-C10-C8:1, and Rha-Rha-C8-C8. The radical scavenging activity of rhamnolipid (DNM50RL) was determined by 2, 3-diphenyl-1-picrylhydrazyl (DPPH) assay which showed an IC50 value of 101.8 μg/ ml. The cytotoxic activity was investigated against MDA-MB-231 breast cancer cell line by MTT (4,5-dimethylthiazol-2-yl-2,5-diphenyl tetrazolium bromide) assay which showed a very low IC50 of 0.05 μg/ ml at 72 h of treatment. Further, its activity was confirmed by resazurin and trypan blue assay with IC50 values of 0.01 μg/ml and 0.64 μg/ ml at 72 h of treatment, respectively. Thus, the DNM50RL would play a vital role in the treatment of breast cancer targeting inhibition of p38MAPK.
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Affiliation(s)
- Neelam Mishra
- Department of Microbiology, Gulbarga University, Gulbarga, India
| | - Kavita Rana
- Department of Toxicology, Chaudhary Charan Singh University, Meerut, India
| | | | - Rakesh Kumar
- Department of Life Science, School of Life Sciences, Central University of Karnataka, Kadaganchi, India
| | - Vijyendra Pandey
- Department of Psychology, School of Social and Behavioural Sciences, Central University of Karnataka, Kadaganchi, India
| | - Bharathi P Salimath
- Department of Biotechnology, University of Mysore, Mysore, India.,Sanorva Biotech Pvt. Ltd., Mysuru, India
| | - Dayanand Agsar
- Department of Microbiology, Gulbarga University, Gulbarga, India
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Trindade M, Sithole N, Kubicki S, Thies S, Burger A. Screening Strategies for Biosurfactant Discovery. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2021; 181:17-52. [PMID: 34518910 DOI: 10.1007/10_2021_174] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The isolation and screening of bacteria and fungi for the production of surface-active compounds has been the basis for the majority of the biosurfactants discovered to date. Hence, a wide variety of well-established and relatively simple methods are available for screening, mostly focused on the detection of surface or interfacial activity of the culture supernatant. However, the success of any biodiscovery effort, specifically aiming to access novelty, relies directly on the characteristics being screened for and the uniqueness of the microorganisms being screened. Therefore, given that rather few novel biosurfactant structures have been discovered during the last decade, advanced strategies are now needed to widen access to novel chemistries and properties. In addition, more modern Omics technologies should be considered to the traditional culture-based approaches for biosurfactant discovery. This chapter summarizes the screening methods and strategies typically used for the discovery of biosurfactants and highlights some of the Omics-based approaches that have resulted in the discovery of unique biosurfactants. These studies illustrate the potentially enormous diversity that has yet to be unlocked and how we can begin to tap into these biological resources.
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Affiliation(s)
- Marla Trindade
- Institute for Microbial Biotechnology and Metagenomics, University of the Western Cape, Cape Town, South Africa.
| | - Nombuso Sithole
- Institute for Microbial Biotechnology and Metagenomics, University of the Western Cape, Cape Town, South Africa
| | - Sonja Kubicki
- Institute of Molecular Enzyme Technology, Heinrich-Heine-Universität Düsseldorf, Düsseldorf, Germany
| | - Stephan Thies
- Institute of Molecular Enzyme Technology, Heinrich-Heine-Universität Düsseldorf, Düsseldorf, Germany
| | - Anita Burger
- Institute for Microbial Biotechnology and Metagenomics, University of the Western Cape, Cape Town, South Africa
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Fukuoka T, Nakamura S, Morita T, Ohmura T, Kotani M, Naito Y, Sato H. Surface-assisted Laser Desorption/ionization Mass Spectrometry Analysis of the Glycolipid Biosurfactants, Mannosylerythritol Lipids, Using an Ionization-assisting Substrate. J Oleo Sci 2021; 70:1175-1179. [PMID: 34248100 DOI: 10.5650/jos.ess21084] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) is a promising tool for the screening of glycolipid-type biosurfactants (BSs) from a crude extract of microbial products. However, it is unsuitable for the detection of lower molecular weight products because the observed ions are overlapped with matrix-derived ions at lower mass range. In this study, we applied a "matrix-free" surface-assisted laser desorption/ionization mass spectrometry (SALDI-MS) analysis using a through-hole alumina membrane as an ionization-assisting substrate. Using this method, we could detect a variety of lower molecular weight products in an extract of a glycolipid BS producer with good sensitivity. In addition, the culture solution could be analyzed directly by this method.
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Affiliation(s)
- Tokuma Fukuoka
- Research Institute for Sustainable Chemistry, National Institute of Advanced Industrial Science and Technology (AIST)
| | - Sayaka Nakamura
- Research Institute for Sustainable Chemistry, National Institute of Advanced Industrial Science and Technology (AIST)
| | - Tomotake Morita
- Research Institute for Sustainable Chemistry, National Institute of Advanced Industrial Science and Technology (AIST)
| | | | | | - Yasuhide Naito
- The Graduate School for the Creation of New Photonics Industries
| | - Hiroaki Sato
- Research Institute for Sustainable Chemistry, National Institute of Advanced Industrial Science and Technology (AIST)
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Twigg MS, Baccile N, Banat IM, Déziel E, Marchant R, Roelants S, Van Bogaert INA. Microbial biosurfactant research: time to improve the rigour in the reporting of synthesis, functional characterization and process development. Microb Biotechnol 2021; 14:147-170. [PMID: 33249753 PMCID: PMC7888453 DOI: 10.1111/1751-7915.13704] [Citation(s) in RCA: 36] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2020] [Revised: 10/16/2020] [Accepted: 10/23/2020] [Indexed: 01/01/2023] Open
Abstract
The demand for microbially produced surface-active compounds for use in industrial processes and products is increasing. As such, there has been a comparable increase in the number of publications relating to the characterization of novel surface-active compounds: novel producers of already characterized surface-active compounds and production processes for the generation of these compounds. Leading researchers in the field have identified that many of these studies utilize techniques are not precise and accurate enough, so some published conclusions might not be justified. Such studies lacking robust experimental evidence generated by validated techniques and standard operating procedures are detrimental to the field of microbially produced surface-active compound research. In this publication, we have critically reviewed a wide range of techniques utilized in the characterization of surface-active compounds from microbial sources: identification of surface-active compound producing microorganisms and functional testing of resultant surface-active compounds. We have also reviewed the experimental evidence required for process development to take these compounds out of the laboratory and into industrial application. We devised this review as a guide to both researchers and the peer-reviewed process to improve the stringency of future studies and publications within this field of science.
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Affiliation(s)
- Matthew Simon Twigg
- School of Biomedical SciencesUlster UniversityColeraine, Co. LondonderryBT52 1SAUK
| | - Niki Baccile
- Centre National de la Recherche ScientifiqueLaboratoire de Chimie de la Matière Condensée de ParisSorbonne UniversitéLCMCPParisF‐75005France
| | - Ibrahim M. Banat
- School of Biomedical SciencesUlster UniversityColeraine, Co. LondonderryBT52 1SAUK
| | - Eric Déziel
- Centre Armand‐Frappier Santé BiotechnologieInstitut National de la Recherche Scientifique (INRS)531, Boul. Des PrairiesLavalQCH7V 1B7Canada
| | - Roger Marchant
- School of Biomedical SciencesUlster UniversityColeraine, Co. LondonderryBT52 1SAUK
| | - Sophie Roelants
- Centre for Industrial Biotechnology and Biocatalysis (InBio.be)Faculty of Bioscience EngineeringGhent UniversityGhentBelgium
- Bio Base Europe Pilot PlantRodenhuizenkaai 1Ghent9042Belgium
| | - Inge N. A. Van Bogaert
- Centre for Synthetic BiologyDepartment of BiotechnologyGhent UniversityCoupure Links 653Ghent9000Belgium
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