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Martínez-Zavala SA, Ortiz-Rodríguez T, Salcedo-Hernández R, Casados-Vázquez LE, Del Rincón-Castro MC, Bideshi DK, Barboza-Corona JE. The chitin-binding domain of Bacillus thuringiensis ChiA74 inhibits gram-negative bacterial and fungal pathogens of humans and plants. Int J Biol Macromol 2024; 254:128049. [PMID: 37963502 DOI: 10.1016/j.ijbiomac.2023.128049] [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: 08/03/2023] [Revised: 11/07/2023] [Accepted: 11/10/2023] [Indexed: 11/16/2023]
Abstract
The chitinase ChiA74 is synthesized by Bacillus thuringiensis and possesses a modular organization composed of four domains. In the C-terminal of the enzyme is located the chitin-binding domain (CBD), which has not been isolated as a single unit or characterized. Here, we aimed to isolate the ChiA74's CBD as a single unit, determine the binding properties, and evaluate its antimicrobial and hemolytic activities. We cloned the ChiA74's CBD and expressed it in Escherichia coli BL21. The single domain was purified, analyzed by SDS-PAGE, and characterized. The recombinant CBD (rCBD) showed a molecular mass of ∼14 kDa and binds strongly to α-chitin, with Kd and Bmax of ∼4.7 ± 0.9 μM and 1.5 ± 0.1 μmoles/g chitin, respectively. Besides, the binding potential (Bmax/Kd) was stronger for α-chitin (∼0.31) than microcrystalline cellulose (∼0.19). It was also shown that the purified rCBD inhibited the growth of the clinically relevant Gram-negative bacteria (GNB) Vibrio cholerae, and V. parahemolyticus CVP2 with minimum inhibitory concentrations (MICs) of 121 ± 9.9 and 138 ± 3.2 μg/mL, respectively, and of one of the most common GNB plant pathogens, Pseudomonas syringae with a MIC of 230 ± 13.8 μg/mL. In addition, the rCBD possessed antifungal activity inhibiting the conidia germination of Fusarium oxysporum (MIC = 192 ± 37.5 μg/mL) and lacked hemolytic and agglutination activities against human erythrocytes. The significance of this work lies in the fact that data provided here show for the first time that ChiA74's CBD from B. thuringiensis has antimicrobial activity, suggesting its potential use against significant pathogenic microorganisms. Future works will be focused on testing the inhibitory effect against other pathogenic microorganisms and elucidating the mechanism of action.
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Affiliation(s)
- Sheila A Martínez-Zavala
- Graduate Program in Biosciences, Life Science Division, University of Guanajuato Campus Irapuato-Salamanca, Irapuato, Guanajuato 36500, México
| | - Tomás Ortiz-Rodríguez
- Graduate Program in Biosciences, Life Science Division, University of Guanajuato Campus Irapuato-Salamanca, Irapuato, Guanajuato 36500, México
| | - Rubén Salcedo-Hernández
- Graduate Program in Biosciences, Life Science Division, University of Guanajuato Campus Irapuato-Salamanca, Irapuato, Guanajuato 36500, México
| | - Luz E Casados-Vázquez
- Graduate Program in Biosciences, Life Science Division, University of Guanajuato Campus Irapuato-Salamanca, Irapuato, Guanajuato 36500, México; Food Department, Life Science Division, University of Guanajuato Campus Irapuato-Salamanca, Irapuato, Guanajuato 36500, México; CONACyT-University of Guanajuato, México
| | - Ma Cristina Del Rincón-Castro
- Graduate Program in Biosciences, Life Science Division, University of Guanajuato Campus Irapuato-Salamanca, Irapuato, Guanajuato 36500, México; Food Department, Life Science Division, University of Guanajuato Campus Irapuato-Salamanca, Irapuato, Guanajuato 36500, México
| | - Dennis K Bideshi
- Department of Biological Sciences, Program in Biomedical Sciences, California Baptist University, Riverside, CA, United States of America
| | - José E Barboza-Corona
- Graduate Program in Biosciences, Life Science Division, University of Guanajuato Campus Irapuato-Salamanca, Irapuato, Guanajuato 36500, México; Food Department, Life Science Division, University of Guanajuato Campus Irapuato-Salamanca, Irapuato, Guanajuato 36500, México.
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Moshe M, Gupta CL, Sela N, Minz D, Banin E, Frenkel O, Cytryn E. Comparative genomics of Bacillus cereus sensu lato spp. biocontrol strains in correlation to in-vitro phenotypes and plant pathogen antagonistic capacity. Front Microbiol 2023; 14:996287. [PMID: 36846749 PMCID: PMC9947482 DOI: 10.3389/fmicb.2023.996287] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2022] [Accepted: 01/12/2023] [Indexed: 02/11/2023] Open
Abstract
Bacillus cereus sensu lato (Bcsl) strains are widely explored due to their capacity to antagonize a broad range of plant pathogens. These include B. cereus sp. UW85, whose antagonistic capacity is attributed to the secondary metabolite Zwittermicin A (ZwA). We recently isolated four soil and root-associated Bcsl strains (MO2, S-10, S-25, LSTW-24) that displayed different growth profiles and in-vitro antagonistic effects against three soilborne plant pathogens models: Pythium aphanidermatum (oomycete) Rhizoctonia solani (basidiomycete), and Fusarium oxysporum (ascomycete). To identify genetic mechanisms potentially responsible for the differences in growth and antagonistic phenotypes of these Bcsl strains, we sequenced and compared their genomes, and that of strain UW85 using a hybrid sequencing pipeline. Despite similarities, specific Bcsl strains had unique secondary metabolite and chitinase-encoding genes that could potentially explain observed differences in in-vitro chitinolytic potential and anti-fungal activity. Strains UW85, S-10 and S-25 contained a (~500 Kbp) mega-plasmid that harbored the ZwA biosynthetic gene cluster. The UW85 mega-plasmid contained more ABC transporters than the other two strains, whereas the S-25 mega-plasmid carried a unique cluster containing cellulose and chitin degrading genes. Collectively, comparative genomics revealed several mechanisms that can potentially explain differences in in-vitro antagonism of Bcsl strains toward fungal plant pathogens.
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Affiliation(s)
- Maya Moshe
- Institute of Soil, Water and Environmental Sciences, Agricultural Research Organization, Rishon-Lezion, Israel
- Institute of Plant Pathology and Weed Research, Agricultural Research Organization, Rishon-Lezion, Israel
- The Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat Gan, Israel
| | - Chhedi Lal Gupta
- Institute of Soil, Water and Environmental Sciences, Agricultural Research Organization, Rishon-Lezion, Israel
| | - Noa Sela
- Institute of Plant Pathology and Weed Research, Agricultural Research Organization, Rishon-Lezion, Israel
| | - Dror Minz
- Institute of Soil, Water and Environmental Sciences, Agricultural Research Organization, Rishon-Lezion, Israel
| | - Ehud Banin
- The Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat Gan, Israel
| | - Omer Frenkel
- Institute of Plant Pathology and Weed Research, Agricultural Research Organization, Rishon-Lezion, Israel
| | - Eddie Cytryn
- Institute of Soil, Water and Environmental Sciences, Agricultural Research Organization, Rishon-Lezion, Israel
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Thakur D, Chauhan A, Jhilta P, Kaushal R, Dipta B. Microbial chitinases and their relevance in various industries. Folia Microbiol (Praha) 2023; 68:29-53. [PMID: 35972681 DOI: 10.1007/s12223-022-00999-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2022] [Accepted: 07/31/2022] [Indexed: 01/09/2023]
Abstract
Chitin, the second most abundant biopolymer on earth after cellulose, is composed of β-1,4-N-acetylglucosamine (GlcNAc) units. It is widely distributed in nature, especially as a structural polysaccharide in the cell walls of fungi, the exoskeletons of crustaceans, insects, and nematodes. However, the principal commercial source of chitin is the shells of marine or freshwater invertebrates. Microbial chitinases are largely responsible for chitin breakdown in nature, and they play an important role in the ecosystem's carbon and nitrogen balance. Several microbial chitinases have been characterized and are gaining prominence for their applications in various sectors. The current review focuses on chitinases of microbial origin, their diversity, and their characteristics. The applications of chitinases in several industries such as agriculture, food, the environment, and pharmaceutical sectors are also highlighted.
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Affiliation(s)
- Deepali Thakur
- Dr Yashwant Singh Parmar University of Horticulture and Forestry, Nauni, Solan, 173230, Himachal Pradesh, India
| | - Anjali Chauhan
- Dr Yashwant Singh Parmar University of Horticulture and Forestry, Nauni, Solan, 173230, Himachal Pradesh, India
| | - Prakriti Jhilta
- Dr Yashwant Singh Parmar University of Horticulture and Forestry, Nauni, Solan, 173230, Himachal Pradesh, India
| | - Rajesh Kaushal
- Dr Yashwant Singh Parmar University of Horticulture and Forestry, Nauni, Solan, 173230, Himachal Pradesh, India
| | - Bhawna Dipta
- ICAR-Central Potato Research Institute, Shimla, 171001, Himachal Pradesh, India.
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Genetic Determinants of Antagonistic Interactions and the Response of New Endophytic Strain Serratia quinivorans KP32 to Fungal Phytopathogens. Int J Mol Sci 2022; 23:ijms232415561. [PMID: 36555201 PMCID: PMC9779691 DOI: 10.3390/ijms232415561] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2022] [Revised: 12/03/2022] [Accepted: 12/06/2022] [Indexed: 12/14/2022] Open
Abstract
Fungal phytopathogens are challenging to control due to their penetration into plant tissues. Therefore, plant-colonizing bacteria could serve as an excellent weapon in fighting fungal infections. In this study, we aim to determine the biocontrol potential of the new endophytic strain Serratia quinivorans KP32, isolated from the roots of Petroselinum crispum L.; identify the related mechanisms; and understand the basis of its antagonistic interaction with taxonomically diverse fungi at the molecular level. The KP32 strain presented biological activity against Rhizoctonia solani, Colletotrichum dematium, Fusarium avenaceum, and Sclerotinia sclerotiorum, and its ability to inhibit the growth of the phytopathogens was found to be mediated by a broad spectrum of biocontrol features, such as the production of a number of lytic enzymes (amylases, chitinases, and proteases), siderophores, volatile organic and inorganic compounds, salicylic acid, and N-acyl-homoserine lactones. The higher expression of chitinase (chiA) and genes involved in the biosynthesis of hydrogen cyanide (hcnC), enterobactin (entB), and acetoin (budA) in bacteria exposed to fungal filtrates confirmed that these factors could act in combination, leading to a synergistic inhibitory effect of the strain against phytopathogens. We also confirm the active movement, self-aggregation, exopolysaccharide production, and biofilm formation abilities of the KP32 strain, which are essential for effective plant colonization. Its biological activity and colonization potential indicate that KP32 holds tremendous potential for use as an active biopesticide and plant growth promoter.
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Nilpa P, Chintan K, Sayyed RZ, El Enshasy H, El Adawi H, Alhazmi A, Almalki AH, Haque S. Formation of recombinant bifunctional fusion protein: A newer approach to combine the activities of two enzymes in a single protein. PLoS One 2022; 17:e0265969. [PMID: 35363796 PMCID: PMC8975109 DOI: 10.1371/journal.pone.0265969] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2021] [Accepted: 03/10/2022] [Indexed: 02/01/2023] Open
Abstract
The tissue of insects, pests, and fungi has a chitin layer followed by protein in the cell membrane. The complete biodegradation of chitin and protein-present in the waste requires the action of two enzymes, namely chitinase, and protease. Combining chitinase and protease in a single protein/enzyme will serve as a bifunctional enzyme that can efficiently degrade the chitin and protein-rich biomass. The present study was aimed to fuse these two enzymes to produce a single protein and study the kinetics of the recombinant fusion protein. A chitinase and alkaline protease genes were isolated, cloned, and expressed successfully as a fusion product in heterologous host Escherichia coli. The two native genes were successfully fused in E.coli by using flexible glycine–serine (G4S)2 linker (GGGGS, GS linker). The recombinant fusion protein in E.coli showed hydrolyzed chitin and protein on chitin and bovine serum albumin agar plates confirming the successful cloning and expression of chitinase and protease enzymes in a single fusion protein. The common pUC18-T7 mini vector with the ompA signal sequence helps the extracellular expression of fusion protein efficiently. The native gel electrophoresis revealed a molecular mass of purified protein as 92.0 kDa. The fusion protein’s maximal chitinase and protease activity occurred at pH 5.0 and 8.0 and 30 0C, respectively resembling the individual enzymes’. In the kinetic studies of the fusion protein, it was observed that the presence of metal ions such as Cu2+, Na2+, and Ca2+; significantly enhanced the enzyme activities while organic solvents oxidants and chemicals have drastically affected the activities of both the enzymes in the fusion protein. No such fusion protein has been produced in a heterologous host yet. The reports on fusion protein with biomass-degrading capacity are also scarce. This is probably the first report of a bifunctional chitinase/protease expressed in E. coli.
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Affiliation(s)
- Patel Nilpa
- Department of Plant Molecular Biology and Biotechnology, ASPEE College of Horticulture and Forestry, Navsari Agricultural University, Navsari, Gujarat, India
| | - Kapadia Chintan
- Department of Plant Molecular Biology and Biotechnology, ASPEE College of Horticulture and Forestry, Navsari Agricultural University, Navsari, Gujarat, India
- * E-mail: (KC); (RZS)
| | - R. Z. Sayyed
- Department of Microbiology, PSGVP Mandal’s S. I. Patil Arts, G B Patel Science & STKVS Commerce College, Shahada, Maharashtra, India
- Department of Entomology, Asian PGPR Society for Sustainable Agriculture, Auburn University, Auburn, AL, United States of America
- * E-mail: (KC); (RZS)
| | - Hesham El Enshasy
- Institute of Bioproduct Development (IBD), Universiti Teknologi Malaysia (UTM), Skudai, Johor Bahru, Malaysia
- School of Chemical and Energy Engineering, Faculty of Engineering, Universiti Teknologi Malaysia (UTM), Skudai, Johor Bahru, Malaysia
- City of Scientific Research and Technology Applications (SRTA), New Burg Al Arab, Alexandria, Egypt
| | - Hala El Adawi
- City of Scientific Research and Technology Applications (SRTA), New Burg Al Arab, Alexandria, Egypt
| | - Alaa Alhazmi
- Medical Laboratory Technology Department, Jazan University, Jazan, Saudi Arabia
- SMIRES for Consultation in Specialized Medical Laboratories, Jazan University, Jazan, Saudi Arabia
| | - Atiah H. Almalki
- Department of Pharmaceutical Chemistry, College of Pharmacy, Taif University, Taif, Saudi Arabia
- Addiction and Neuroscience Research Unit, College of Pharmacy, Taif University, Al-Hawiah, Taif, Saudi Arabia
| | - Shafiul Haque
- Research and Scientific Studies Unit, College of Nursing and Allied Health Sciences, Jazan University, Jazan, Saudi Arabia
- Bursa Uludağ University Faculty of Medicine, Görükle Campus, Nilüfer,Bursa, Turkey
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Lee S, Byun S, Lee C, Park SH, Rudra D, Iwakura Y, Lee YJ, Im S, Hwang DS. Resolving the Mutually Exclusive Immune Responses of Chitosan with Nanomechanics and Immunological Assays. Adv Healthc Mater 2022; 11:e2102667. [PMID: 35397156 DOI: 10.1002/adhm.202102667] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2021] [Revised: 03/18/2022] [Indexed: 12/22/2022]
Abstract
Multifaceted functions displayed by both pro- and anti-inflammatory properties of chitosan hinder its effective development as an immunomodulatory agent. Herein, the contributions of the bending stiffness of chitosan with regard to its immune regulatory properties toward inflammation are investigated. The anti-inflammatory properties of chitosan molecular weight (MW) with a shorter (≈1 kDa) or longer (≈15 kDa) than the persistent length (LP ) are compared using immunological assays and nanomechanics-based experiments on the surface forces apparatus (SFA). Interestingly, 1 kDa chitosan significantly enhances the generation of anti-inflammatory regulatory T cells (Tregs) through the Dectin-1-dependent pattern recognition receptor (PRR) on antigen-presenting cells. SFA analyses also show a similar trend of interaction forces between chitosan and diverse PRRs depending on their MW. The results obtained in the immunological and nanomechanical experiments are consistent and imply that the binding features of PRRs vary depending on the MW of chitosan, which may alter immune activity. In accordance, in vivo administration of only 1 kDa represses inflammatory responses and suppresses the progression of experimental colitis. This study elucidates a previously unexplored bending stiffness-dependent immune regulatory property of chitosan and suggests the applicability of low MW (rod-like) chitosan as a pharmaceutical ingredient to treat diverse inflammatory disorders.
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Affiliation(s)
- Suyoung Lee
- Division of Integrative Biosciences and Biotechnology Department of Life Science Pohang University of Science and Technology (POSTECH) 77 Cheongam‐ro Pohang 37673 Republic of Korea
- Division of Environmental Science and Engineering Pohang University of Science and Technology (POSTECH) 77 Cheongam‐ro Pohang 37673 Republic of Korea
| | - Seohyun Byun
- Division of Integrative Biosciences and Biotechnology Department of Life Science Pohang University of Science and Technology (POSTECH) 77 Cheongam‐ro Pohang 37673 Republic of Korea
| | - Changhon Lee
- Division of Integrative Biosciences and Biotechnology Department of Life Science Pohang University of Science and Technology (POSTECH) 77 Cheongam‐ro Pohang 37673 Republic of Korea
| | - Sun Hee Park
- ImmmunoBiome Inc. 77 Cheongam‐Ro, Nam‐Gu Pohang 37673 Republic of Korea
| | - Dipayan Rudra
- ImmmunoBiome Inc. 77 Cheongam‐Ro, Nam‐Gu Pohang 37673 Republic of Korea
- School of Life Sciences and Technology ShanghaiTech University 393 Huaxia Middle Rd Pudong Shanghai 201210 China
| | - Yoichiro Iwakura
- Center for Animal Disease Models Research Institute for Science and Technology Tokyo University of Science 2669 Yamazaki Noda Chiba 278‐0022 Japan
- Center for Experimental Medicine and Systems Biology Institute of Medical Science the University of Tokyo Minato‐ku Tokyo 108‐0071 Japan
| | - You Jeong Lee
- Division of Integrative Biosciences and Biotechnology Department of Life Science Pohang University of Science and Technology (POSTECH) 77 Cheongam‐ro Pohang 37673 Republic of Korea
- Department of Pharmacy Seoul National University Gwanak‐ro 38‐gil Seoul 08826 Republic of Korea
| | - Sin‐Hyeog Im
- Division of Integrative Biosciences and Biotechnology Department of Life Science Pohang University of Science and Technology (POSTECH) 77 Cheongam‐ro Pohang 37673 Republic of Korea
- ImmmunoBiome Inc. 77 Cheongam‐Ro, Nam‐Gu Pohang 37673 Republic of Korea
| | - Dong Soo Hwang
- Division of Integrative Biosciences and Biotechnology Department of Life Science Pohang University of Science and Technology (POSTECH) 77 Cheongam‐ro Pohang 37673 Republic of Korea
- Division of Environmental Science and Engineering Pohang University of Science and Technology (POSTECH) 77 Cheongam‐ro Pohang 37673 Republic of Korea
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Molecular analysis of genes involved in chitin degradation from the chitinolytic bacterium Bacillus velezensis. Antonie van Leeuwenhoek 2022; 115:215-231. [PMID: 35001244 DOI: 10.1007/s10482-021-01697-2] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/20/2021] [Accepted: 11/29/2021] [Indexed: 12/30/2022]
Abstract
Bacillus velezensis RB.IBE29 is a potent biocontrol agent with high chitinase activity isolated from the rhizosphere of black pepper cultivated in the Central Highlands, Vietnam. Genome sequences revealed that this species possesses some GH18 chitinases and AA10 protein(s); however, these enzymes have not been experimentally characterized. In this work, three genes were identified from the genomic DNA of this bacterium and cloned in Escherichia coli. Sequence analysis exhibited that the ORF of chiA consists of 1,203 bp and encodes deduced 45.46 kDa-chitinase A of 400 aa. The domain structure of chitinase A is composed of a CBM 50 domain at the N-terminus and a catalytic domain at the C-terminus. The ORF of chiB includes 1,263 bp and encodes deduced 47.59 kDa-chitinase B of 420 aa. Chitinase B consists of two CBM50 domains at the N-terminus and a catalytic domain at the C-terminus. The ORF of lpmo10 is 621 bp and encodes a deduced 22.44 kDa-AA10 protein, BvLPMO10 of 206 aa. BvLPMO10 contains a signal peptide and an AA10 catalytic domain. Chitinases A and B were grouped into subfamily A of family 18 chitinases. Amino acid sequences in their catalytic domains lack aromatic residues (Trp, Phe, Tyr) probably involved in processivity and substrate binding compared with well-known bacterial GH18 chitinases. chiB was successfully expressed in E. coli. Purified rBvChiB degraded insoluble chitin and was responsible for inhibition of fungal spore-germination and egg hatching of plant-parasitic nematode. This is the first report describing the analysis of the chitinase system from B. velezensis.
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Dimkić I, Bhardwaj V, Carpentieri-Pipolo V, Kuzmanović N, Degrassi G. The chitinolytic activity of the Curtobacterium sp. isolated from field-grown soybean and analysis of its genome sequence. PLoS One 2021; 16:e0259465. [PMID: 34731210 PMCID: PMC8565777 DOI: 10.1371/journal.pone.0259465] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2021] [Accepted: 10/19/2021] [Indexed: 11/19/2022] Open
Abstract
Curtobacterium sp. GD1 was isolated from leaves of conventionally grown soybean in Brazil. It was noteworthy that among all bacteria previously isolated from the same origin, only Curtobacterium sp. GD1 showed a strong chitinase activity. The enzyme was secreted and its production was induced by the presence of colloidal chitin in the medium. The chitinase was partially purified and characterized: molecular weight was approximately 37 kDa and specific activity 90.8 U/mg. Furthermore, Curtobacterium sp. GD1 genome was sequenced and analyzed. Our isolate formed a phylogenetic cluster with four other Curtobacterium spp. strains, with ANIb/ANIm ≥ 98%, representing a new, still non described Curtobacterium species. The circular genome visualization and comparison of genome sequences of strains forming new cluster indicated that most regions within their genomes were highly conserved. The gene associated with chitinase production was identified and the distribution pattern of glycosyl hydrolases genes was assessed. Also, genes associated with catabolism of structural carbohydrates such as oligosaccharides, mixed polysaccharides, plant and animal polysaccharides, as well as genes or gene clusters associated with resistance to antibiotics, toxic compounds and auxin biosynthesis subsystem products were identified. The abundance of putative glycosyl hydrolases in the genome of Curtobacterium sp. GD1 suggests that it has the tools for the hydrolysis of different polysaccharides. Therefore, Curtobacterium sp. GD1 isolated from soybean might be a bioremediator, biocontrol agent, an elicitor of the plant defense responses or simply degrader.
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Affiliation(s)
- Ivica Dimkić
- Department of Biochemistry and Molecular Biology, University of Belgrade – Faculty of Biology, Belgrade, Serbia
| | - Vibha Bhardwaj
- Ras Al Khaimah Municipality Department, Director Environment Laboratories, Dubai, United Arab Emirates
| | | | - Nemanja Kuzmanović
- Federal Research Centre for Cultivated Plants (JKI), Institute for Plant Protection in Horticulture and Forests, Julius Kühn-Institut, Braunschweig, Germany
| | - Giuliano Degrassi
- Industrial Biotechnology Group, International Centre for Genetic Engineering and Biotechnology (ICGEB), Buenos Aires, Argentina
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Vortmann M, Stumpf AK, Sgobba E, Dirks-Hofmeister ME, Krehenbrink M, Wendisch VF, Philipp B, Moerschbacher BM. A bottom-up approach towards a bacterial consortium for the biotechnological conversion of chitin to L-lysine. Appl Microbiol Biotechnol 2021; 105:1547-1561. [PMID: 33521845 PMCID: PMC7880967 DOI: 10.1007/s00253-021-11112-5] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2020] [Revised: 12/18/2020] [Accepted: 01/12/2021] [Indexed: 01/27/2023]
Abstract
Chitin is an abundant waste product from shrimp and mushroom industries and as such, an appropriate secondary feedstock for biotechnological processes. However, chitin is a crystalline substrate embedded in complex biological matrices, and, therefore, difficult to utilize, requiring an equally complex chitinolytic machinery. Following a bottom-up approach, we here describe the step-wise development of a mutualistic, non-competitive consortium in which a lysine-auxotrophic Escherichia coli substrate converter cleaves the chitin monomer N-acetylglucosamine (GlcNAc) into glucosamine (GlcN) and acetate, but uses only acetate while leaving GlcN for growth of the lysine-secreting Corynebacterium glutamicum producer strain. We first engineered the substrate converter strain for growth on acetate but not GlcN, and the producer strain for growth on GlcN but not acetate. Growth of the two strains in co-culture in the presence of a mixture of GlcN and acetate was stabilized through lysine cross-feeding. Addition of recombinant chitinase to cleave chitin into GlcNAc2, chitin deacetylase to convert GlcNAc2 into GlcN2 and acetate, and glucosaminidase to cleave GlcN2 into GlcN supported growth of the two strains in co-culture in the presence of colloidal chitin as sole carbon source. Substrate converter strains secreting a chitinase or a β-1,4-glucosaminidase degraded chitin to GlcNAc2 or GlcN2 to GlcN, respectively, but required glucose for growth. In contrast, by cleaving GlcNAc into GlcN and acetate, a chitin deacetylase-expressing substrate converter enabled growth of the producer strain in co-culture with GlcNAc as sole carbon source, providing proof-of-principle for a fully integrated co-culture for the biotechnological utilization of chitin. ![]()
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Affiliation(s)
- Marina Vortmann
- Institute for Biology and Biotechnology of Plants, University of Münster, Schlossplatz 8, 48143, Münster, Germany
| | - Anna K Stumpf
- Institute for Molecular Microbiology and Biotechnology, University of Münster, Corrensstr. 3, 48149, Münster, Germany
| | - Elvira Sgobba
- Chair of Genetics of Prokaryotes, Faculty of Biology & CeBiTec, University of Bielefeld, P.O. Box 100131, 33501, Bielefeld, Germany
- Department of Forest Genetics and Plant Physiology, SLU, Skogsmarksgränd 17, 90183, Umeå, Sweden
| | | | | | - Volker F Wendisch
- Chair of Genetics of Prokaryotes, Faculty of Biology & CeBiTec, University of Bielefeld, P.O. Box 100131, 33501, Bielefeld, Germany
| | - Bodo Philipp
- Institute for Molecular Microbiology and Biotechnology, University of Münster, Corrensstr. 3, 48149, Münster, Germany
| | - Bruno M Moerschbacher
- Institute for Biology and Biotechnology of Plants, University of Münster, Schlossplatz 8, 48143, Münster, Germany.
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Nakagawa YS, Kudo M, Onodera R, Ang LZP, Watanabe T, Totani K, Eijsink VGH, Vaaje-Kolstad G. Analysis of Four Chitin-Active Lytic Polysaccharide Monooxygenases from Streptomyces griseus Reveals Functional Variation. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2020; 68:13641-13650. [PMID: 33151668 DOI: 10.1021/acs.jafc.0c05319] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Lytic polysaccharide monooxygenases (LPMOs) are redox-active enzymes that cleave insoluble polysaccharides by an oxidative reaction. In the present study, we have characterized four recombinant putative chitin-active LPMOs from Streptomyces griseus (SgLPMO10B, -C, -D, and -F) and evaluated their potential in enhancing hydrolysis of α- and β-chitin by three families of 18 chitinases of Serratia marcescens, SmChiA, -B, and -C. All four recombinant SgLPMO10s showed oxidative activity toward both α- and β-chitin but exhibited different abilities to promote the release of chitobiose from chitin by chitinases depending on both the chitinase and the chitin type. These effects were observed under conditions where the amount of LPMO in the reaction was not rate-limiting, showing that the observed functional differences relate to different abilities of the LPMOs to interact with and act on the substrate. These results show that four seemingly similar LPMOs carrying out the same reaction, cleavage of chitin by C1 oxidation, may have different roles in natural chitin conversion, which provides a rationale for the multiplicity of these enzymes within the same organism. The ability of the LPMOs to act on more natural substrates was demonstrated by showing that SgLPMO10B improved chitin solubilization in dried powdered shrimp shells.
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Affiliation(s)
- Yuko S Nakagawa
- Division of Chemical Engineering and Biotechnology, National Institute of Technology, Ichinoseki College, Ichinoseki Iwate 021-8511, Japan
| | - Madoka Kudo
- Division of Chemical Engineering and Biotechnology, National Institute of Technology, Ichinoseki College, Ichinoseki Iwate 021-8511, Japan
| | - Reiya Onodera
- Division of Chemical Engineering and Biotechnology, National Institute of Technology, Ichinoseki College, Ichinoseki Iwate 021-8511, Japan
| | - Lily Zuin Ping Ang
- Division of Chemical Engineering and Biotechnology, National Institute of Technology, Ichinoseki College, Ichinoseki Iwate 021-8511, Japan
| | - Takeshi Watanabe
- Faculty of Agro-Food Science, Niigata Agro-Food University, Tainai, Niigata 959-2702, Japan
| | - Kazuhide Totani
- Division of Chemical Engineering and Biotechnology, National Institute of Technology, Ichinoseki College, Ichinoseki Iwate 021-8511, Japan
| | - Vincent G H Eijsink
- Faculty of Chemistry, Biotechnology and Food Science, NMBU-Norwegian University of Life Sciences, Ås 1432, Norway
| | - Gustav Vaaje-Kolstad
- Faculty of Chemistry, Biotechnology and Food Science, NMBU-Norwegian University of Life Sciences, Ås 1432, Norway
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11
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Palmer T, Finney AJ, Saha CK, Atkinson GC, Sargent F. A holin/peptidoglycan hydrolase-dependent protein secretion system. Mol Microbiol 2020; 115:345-355. [PMID: 32885520 DOI: 10.1111/mmi.14599] [Citation(s) in RCA: 48] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2020] [Revised: 08/23/2020] [Accepted: 08/26/2020] [Indexed: 12/13/2022]
Abstract
Gram-negative bacteria have evolved numerous pathways to secrete proteins across their complex cell envelopes. Here, we describe a protein secretion system that uses a holin membrane protein in tandem with a cell wall-editing enzyme to mediate the secretion of substrate proteins from the periplasm to the cell exterior. The identity of the cell wall-editing enzymes involved was found to vary across biological systems. For instance, the chitinase secretion pathway of Serratia marcescens uses an endopeptidase to facilitate secretion, whereas the secretion of Typhoid toxin in Salmonella enterica serovar Typhi relies on a muramidase. Various families of holins are also predicted to be involved. Genomic analysis indicates that this pathway is conserved and implicated in the secretion of hydrolytic enzymes and toxins for a range of bacteria. The pairing of holins from different families with various types of peptidoglycan hydrolases suggests that this secretion pathway evolved multiple times. We suggest that the complementary bodies of evidence presented is sufficient to propose that the pathway be named the Type 10 Secretion System (TXSS).
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Affiliation(s)
- Tracy Palmer
- Microbes in Health & Disease, Newcastle University Biosciences Institute, Faculty of Medical Sciences, Newcastle University, Newcastle Upon Tyne, UK
| | - Alexander J Finney
- Plant & Microbial Biology, School of Natural and Environmental Sciences, Faculty of Science, Agriculture & Engineering, Newcastle University, Newcastle Upon Tyne, UK
| | - Chayan Kumar Saha
- Department of Molecular Biology and Umeå Centre for Microbial Research, Umeå University, Umeå, Sweden
| | - Gemma C Atkinson
- Department of Molecular Biology and Umeå Centre for Microbial Research, Umeå University, Umeå, Sweden
| | - Frank Sargent
- Plant & Microbial Biology, School of Natural and Environmental Sciences, Faculty of Science, Agriculture & Engineering, Newcastle University, Newcastle Upon Tyne, UK
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12
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Rashidi S, Kalantar K, Fernandez-Rubio C, Anvari E, Nguewa P, Hatam G. Chitin binding protein as a possible RNA binding protein in Leishmania parasites. Pathog Dis 2020; 78:5735439. [PMID: 32053190 DOI: 10.1093/femspd/ftaa007] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2019] [Accepted: 02/12/2020] [Indexed: 12/17/2022] Open
Abstract
Leishmaniasis includes a broad spectrum of pathological outcomes in humans caused by protozoan parasites from the genus Leishmania. In recent years, proteomic techniques have introduced novel proteins with critical functions in Leishmania parasites. Based on our report of a Chitin binding protein (CBP) in our previous immunoproteomic study, this article suggests that CBP might be an RNA binding protein (RBP) in Leishmania parasites. RBPs, as key regulatory factors, have a role in post-transcriptional gene regulation. The presence of RBPs in Leishmania parasites has not been considered so far; however, this study aims to open a new venue regarding RBPs in Leishmania parasites. Confirming CBP as an RBP in Leishmania parasites, exploring other RBPs and their functions might lead to interesting issues in leishmaniasis. In fact, due to the regulatory role of RBPs in different diseases including cancers and their further classification as therapeutic targets, the emerging evaluation of CBP and RBPs from Leishmania parasites may allow the discovery of novel and effective drugs against leishmaniasis.
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Affiliation(s)
- Sajad Rashidi
- Department of Parasitology and Mycology, School of Medicine, Shiraz University of Medical Sciences, Shiraz, Iran
| | - Kurosh Kalantar
- Department of Immunology, School of Medicine, Shiraz University of Medical Sciences, Shiraz, Iran
| | - Celia Fernandez-Rubio
- University of Navarra, ISTUN Instituto de Salud Tropical, IdiSNa, Department of Microbiology and Parasitology. c/ Irunlarrea 1, 31008 Pamplona, Spain
| | - Enayat Anvari
- Department of Physiology, Faculty of Medicine, Ilam University of Medical Sciences, Ilam, Iran
| | - Paul Nguewa
- University of Navarra, ISTUN Instituto de Salud Tropical, IdiSNa, Department of Microbiology and Parasitology. c/ Irunlarrea 1, 31008 Pamplona, Spain
| | - Gholamreza Hatam
- Basic Sciences in Infectious Diseases Research Center, Shiraz University of Medical Sciences, Shiraz, Iran
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13
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Chitin-based magnetic composite for the removal of contaminating substances from aqueous media. Russ Chem Bull 2020. [DOI: 10.1007/s11172-020-2883-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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14
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Zhao X, Wang Y, Xu X, Tian K, Zhou D, Meng F, Zhang H, Huo H. Genomics analysis of the steroid estrogen-degrading bacterium Serratia nematodiphila DH-S01. BIOTECHNOL BIOTEC EQ 2020. [DOI: 10.1080/13102818.2020.1764388] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022] Open
Affiliation(s)
- Xueying Zhao
- Department of Environmental Engineering, School of Environment, Northeast Normal University, Jilin Province, PR China
| | - Yaojia Wang
- Department of Environmental Engineering, School of Environment, Northeast Normal University, Jilin Province, PR China
| | - Xin Xu
- Department of Environmental Engineering, School of Environment, Northeast Normal University, Jilin Province, PR China
| | - Kejian Tian
- Department of Environmental Engineering, School of Environment, Northeast Normal University, Jilin Province, PR China
| | - Dongwen Zhou
- Department of Environmental Engineering, School of Environment, Northeast Normal University, Jilin Province, PR China
| | - Fanxing Meng
- Department of Environmental Engineering, School of Environment, Northeast Normal University, Jilin Province, PR China
| | - Hongyan Zhang
- Department of Biological Science, School of Life Sciences, Northeast Normal University, Jilin Province, PR China
| | - Hongliang Huo
- Department of Environmental Engineering, School of Environment, Northeast Normal University, Jilin Province, PR China
- Jilin Province Water Pollution Control and Resource Engineering Laboratory, Jilin Province, PR China
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15
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Miranda MRA, Uchôa AF, Ferreira SR, Ventury KE, Costa EP, Carmo PRL, Machado OLT, Fernandes KVS, Amancio Oliveira AE. Chemical Modifications of Vicilins Interfere with Chitin-Binding Affinity and Toxicity to Callosobruchus maculatus (Coleoptera: Chrysomelidae) Insect: A Combined In Vitro and In Silico Analysis. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2020; 68:5596-5605. [PMID: 32343573 DOI: 10.1021/acs.jafc.9b08034] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Vicilins are related to cowpea seed resistance toward Callosobruchus maculatus due to their ability to bind to chitinous structures lining larval midgut. However, this binding mechanism is not fully understood. Here, we identified chitin binding sites and investigated how in vitro and in silico chemical modifications interfere with vicilin chitin binding and insect toxicity. In vitro assays showed that unmodified vicilin strongly binds to chitin matrices, mainly with acetylated chitin. Chemical modifications of specific amino acids (tryptophan, lysine, tyrosine), as well as glutaraldehyde cross-linking, decreased the evaluated parameters. In silico analyses identified at least one chitin binding site in vicilin monomer, the region between Arg208 and Lys216, which bears the sequence REGIRELMK and forms an α helix, exposed in the 3D structure. In silico modifications of Lys223 (acetylated at its terminal nitrogen) and Trp316 (iodinated to 7-iodine-L-tryptophan or oxidized to β-oxy-indolylalanine) decreased vicilin chitin binding affinity. Glucose, sucrose, and N-acetylglucosamine also interfered with vicilin chitin binding affinity.
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Affiliation(s)
- Maria Raquel A Miranda
- Departamento de Bioquímica, Centro de Ciências, Universidade Federal do Ceará (UFC), Fortaleza Ceará 60440554, Brazil
| | - Adriana F Uchôa
- Departamento de Biologia Celular e Genética, Centro de Biociências, Universidade Federal do Rio Grande do Norte, Natal, Rio Grande do Norte 59072970, Brazil
| | - Sarah R Ferreira
- Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro (UENF), Campos dos Goytacazes, Rio de Janeiro 28013-602, Brazil
| | - Kayan E Ventury
- Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro (UENF), Campos dos Goytacazes, Rio de Janeiro 28013-602, Brazil
| | - Evenilton P Costa
- Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro (UENF), Campos dos Goytacazes, Rio de Janeiro 28013-602, Brazil
| | - Paulo R Leitão Carmo
- NUPEN, Universidade Federal do Rio de Janeiro (UFRJ) Macaé, Rio de Janeiro 27965-045, Brazil
| | - Olga L T Machado
- Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro (UENF), Campos dos Goytacazes, Rio de Janeiro 28013-602, Brazil
| | - Katia V S Fernandes
- Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro (UENF), Campos dos Goytacazes, Rio de Janeiro 28013-602, Brazil
| | - Antonia Elenir Amancio Oliveira
- Centro de Biociências e Biotecnologia, Universidade Estadual do Norte Fluminense Darcy Ribeiro (UENF), Campos dos Goytacazes, Rio de Janeiro 28013-602, Brazil
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16
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Pretreatment with KOH and KOH-urea enhanced hydrolysis of α-chitin by an endo-chitinase from Enterobacter cloacae subsp. cloacae. Carbohydr Polym 2020; 235:115952. [DOI: 10.1016/j.carbpol.2020.115952] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2019] [Revised: 12/20/2019] [Accepted: 02/03/2020] [Indexed: 11/15/2022]
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17
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Dutta S, Yu SM, Jeong SC, Lee YH. High-throughput analysis of genes involved in biocontrol performance of Pseudomonas fluorescens NBC275 against Gray mold. J Appl Microbiol 2019; 128:265-279. [PMID: 31574191 DOI: 10.1111/jam.14475] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2019] [Revised: 09/01/2019] [Accepted: 09/17/2019] [Indexed: 01/16/2023]
Abstract
AIMS Many physiological and microbial characteristics influence the biocontrol performance of the biological control agents (BCAs) in agricultural fields. To implement effective biocontrol, the contribution of specific genes, mechanisms and traits to the biocontrol performance of BCAs need to be characterized and explored in greater detail. METHODS AND RESULTS In this study, a transposon (Tn) mutant library using the BCA Pseudomonas fluorescens NBC275 (Pf275) was generated to explore genes and bacterial characteristics involved in antifungal activity and biocontrol performance. Among the Tn mutants, 205 strains showing variations in antifungal activity compared to wild-type (WT) were selected and further analysed for biocontrol efficacy against gray mold in pepper fruits. The genes involved in pyoverdine biosynthesis (pvdI and pvdD) and chitin-binding protein (gbpA) played essential roles in the antifungal activity and biocontrol capacity of Pf275. In addition, a mutation in phlD completely abolished the antifungal activity and significantly suppressed the biocontrol ability of the strain. Genes affecting antifungal activity of Pf275 significantly influenced swimming motility, which was identified as an important trait for the biocontrol ability of the bacterial strain. CONCLUSIONS Overall, our results suggest that antifungal compound production, siderophore biosynthesis and swimming motility synergistically contribute to Pf275 biocontrol performance. The utility of this library was demonstrated by identifying genes for antagonism and biocontrol ability in this BCA strain. The functional roles of many genes identified as contributing to antagonism and in vivo biocontrol activity require further study. SIGNIFICANCE AND IMPACT OF THIS STUDY Genes contributing to antifungal activity and biocontrol performance of P. fluorescens were identified and highlighted by Tn mutagenesis, which will give insight to improve the biocontrol performance of this BCA.
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Affiliation(s)
- S Dutta
- Division of Biotechnology, Chonbuk National University, Iksan-si, Jeollabuk-do, Republic of Korea
| | - S-M Yu
- Freshwater Bioresources Utilization Division, Nakdonggang National Institute of Biological Resources, Sangju-si, Gyeongsangbuk-do, Republic of Korea
| | - S C Jeong
- Freshwater Bioresources Utilization Division, Nakdonggang National Institute of Biological Resources, Sangju-si, Gyeongsangbuk-do, Republic of Korea
| | - Y H Lee
- Division of Biotechnology, Chonbuk National University, Iksan-si, Jeollabuk-do, Republic of Korea.,Advanced Institute of Environment and Bioscience, Plant Medical Research Center, and Institute of Bio-industry, Chonbuk National University, Ikansi-si, Jeollabuk-do, Republic of Korea
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18
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Samoilova NA, Krayukhina MA. Synthesis of magnetic chitin–adsorbent for specific proteins. Carbohydr Polym 2019; 216:107-112. [DOI: 10.1016/j.carbpol.2019.03.048] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2018] [Revised: 02/27/2019] [Accepted: 03/06/2019] [Indexed: 12/19/2022]
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19
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Manjeet K, Madhuprakash J, Mormann M, Moerschbacher BM, Podile AR. A carbohydrate binding module-5 is essential for oxidative cleavage of chitin by a multi-modular lytic polysaccharide monooxygenase from Bacillus thuringiensis serovar kurstaki. Int J Biol Macromol 2019; 127:649-656. [DOI: 10.1016/j.ijbiomac.2019.01.183] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2018] [Revised: 01/03/2019] [Accepted: 01/28/2019] [Indexed: 01/09/2023]
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20
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Elieh Ali Komi D, Sharma L, Dela Cruz CS. Chitin and Its Effects on Inflammatory and Immune Responses. Clin Rev Allergy Immunol 2018; 54:213-223. [PMID: 28251581 DOI: 10.1007/s12016-017-8600-0] [Citation(s) in RCA: 141] [Impact Index Per Article: 23.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Chitin, a potential allergy-promoting pathogen-associated molecular pattern (PAMP), is a linear polymer composed of N-acetylglucosamine residues which are linked by β-(1,4)-glycosidic bonds. Mammalians are potential hosts for chitin-containing protozoa, fungi, arthropods, and nematodes; however, mammalians themselves do not synthetize chitin and thus it is considered as a potential target for recognition by mammalian immune system. Chitin is sensed primarily in the lungs or gut where it activates a variety of innate (eosinophils, macrophages) and adaptive immune cells (IL-4/IL-13 expressing T helper type-2 lymphocytes). Chitin induces cytokine production, leukocyte recruitment, and alternative macrophage activation. Intranasal or intraperitoneal administration of chitin (varying in size, degree of acetylation and purity) to mice has been applied as a routine approach to investigate chitin's priming effects on innate and adaptive immunity. Structural chitin present in microorganisms is actively degraded by host true chitinases, including acidic mammalian chitinases and chitotriosidase into smaller fragments that can be sensed by mammalian receptors such as FIBCD1, NKR-P1, and RegIIIc. Immune recognition of chitin also involves pattern recognition receptors, mainly via TLR-2 and Dectin-1, to activate immune cells to induce cytokine production and creation of an immune network that results in inflammatory and allergic responses. In this review, we will focus on various immunological aspects of the interaction between chitin and host immune system such as sensing, interactions with immune cells, chitinases as chitin degrading enzymes, and immunologic applications of chitin.
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Affiliation(s)
- Daniel Elieh Ali Komi
- Immunology Research Center, Tabriz University of Medical Sciences, Tabriz, East Azerbayjan, Iran.,Department of Immunology, Tabriz University of Medical Sciences, Tabriz, East Azerbayjan, Iran
| | - Lokesh Sharma
- Section of Pulmonary, Critical Care and Sleep Medicine, Department of Internal Medicine, Yale School of Medicine, New Haven, CT, USA
| | - Charles S Dela Cruz
- Section of Pulmonary, Critical Care and Sleep Medicine, Department of Internal Medicine, Yale School of Medicine, New Haven, CT, USA. .,Department of Microbial Pathogenesis, Yale School of Medicine, Cedar Street, New Haven, CT, TACS441D, USA.
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21
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Ceapă CD, Vázquez-Hernández M, Rodríguez-Luna SD, Cruz Vázquez AP, Jiménez Suárez V, Rodríguez-Sanoja R, Alvarez-Buylla ER, Sánchez S. Genome mining of Streptomyces scabrisporus NF3 reveals symbiotic features including genes related to plant interactions. PLoS One 2018; 13:e0192618. [PMID: 29447216 PMCID: PMC5813959 DOI: 10.1371/journal.pone.0192618] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2017] [Accepted: 01/27/2018] [Indexed: 12/17/2022] Open
Abstract
Endophytic bacteria are wide-spread and associated with plant physiological benefits, yet their genomes and secondary metabolites remain largely unidentified. In this study, we explored the genome of the endophyte Streptomyces scabrisporus NF3 for discovery of potential novel molecules as well as genes and metabolites involved in host interactions. The complete genomes of seven Streptomyces and three other more distantly related bacteria were used to define the functional landscape of this unique microbe. The S. scabrisporus NF3 genome is larger than the average Streptomyces genome and not structured for an obligate endosymbiotic lifestyle; this and the fact that can grow in R2YE media implies that it could include a soil-living stage. The genome displays an enrichment of genes associated with amino acid production, protein secretion, secondary metabolite and antioxidants production and xenobiotic degradation, indicating that S. scabrisporus NF3 could contribute to the metabolic enrichment of soil microbial communities and of its hosts. Importantly, besides its metabolic advantages, the genome showed evidence for differential functional specificity and diversification of plant interaction molecules, including genes for the production of plant hormones, stress resistance molecules, chitinases, antibiotics and siderophores. Given the diversity of S. scabrisporus mechanisms for host upkeep, we propose that these strategies were necessary for its adaptation to plant hosts and to face changes in environmental conditions.
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Affiliation(s)
- Corina Diana Ceapă
- Departmento de Biología Molecular y Biotecnología, Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México (UNAM), Ciudad de México, México
| | - Melissa Vázquez-Hernández
- Departmento de Biología Molecular y Biotecnología, Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México (UNAM), Ciudad de México, México
| | - Stefany Daniela Rodríguez-Luna
- Departmento de Biología Molecular y Biotecnología, Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México (UNAM), Ciudad de México, México
| | - Angélica Patricia Cruz Vázquez
- Departmento de Biología Molecular y Biotecnología, Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México (UNAM), Ciudad de México, México
- Laboratorio de Genética Molecular, Epigenética, Desarrollo y Evolución de Plantas, Instituto de Ecología, Universidad Nacional Autónoma de México (UNAM), Ciudad de México, México
- Instituto Tecnológico de Tuxtla Gutiérrez,Tuxtla, Gutiérrez, Chiapas, México
| | - Verónica Jiménez Suárez
- Laboratorio de Genética Molecular, Epigenética, Desarrollo y Evolución de Plantas, Instituto de Ecología, Universidad Nacional Autónoma de México (UNAM), Ciudad de México, México
| | - Romina Rodríguez-Sanoja
- Departmento de Biología Molecular y Biotecnología, Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México (UNAM), Ciudad de México, México
| | - Elena R. Alvarez-Buylla
- Laboratorio de Genética Molecular, Epigenética, Desarrollo y Evolución de Plantas, Instituto de Ecología, Universidad Nacional Autónoma de México (UNAM), Ciudad de México, México
| | - Sergio Sánchez
- Departmento de Biología Molecular y Biotecnología, Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México (UNAM), Ciudad de México, México
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22
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Vogt S, Kelkenberg M, Nöll T, Steinhoff B, Schönherr H, Merzendorfer H, Nöll G. Rapid determination of binding parameters of chitin binding domains using chitin-coated quartz crystal microbalance sensor chips. Analyst 2018; 143:5255-5263. [DOI: 10.1039/c8an01453a] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
Chitin present in fungal cell walls has been considered as a diagnostic polymer for the detection of fungal infections.
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Affiliation(s)
- Stephan Vogt
- Organic Chemistry
- Department of Chemistry and Biology
- University of Siegen
- 57076 Siegen
- Germany
| | - Marco Kelkenberg
- Molecular Biology
- Department of Chemistry and Biology
- University of Siegen
- 57076 Siegen
- Germany
| | - Tanja Nöll
- Organic Chemistry
- Department of Chemistry and Biology
- University of Siegen
- 57076 Siegen
- Germany
| | - Benedikt Steinhoff
- Physical Chemistry I and Research Center of Micro and Nanochemistry and Engineering (Cμ)
- Department of Chemistry and Biology
- University of Siegen
- 57076 Siegen
- Germany
| | - Holger Schönherr
- Physical Chemistry I and Research Center of Micro and Nanochemistry and Engineering (Cμ)
- Department of Chemistry and Biology
- University of Siegen
- 57076 Siegen
- Germany
| | - Hans Merzendorfer
- Molecular Biology
- Department of Chemistry and Biology
- University of Siegen
- 57076 Siegen
- Germany
| | - Gilbert Nöll
- Organic Chemistry
- Department of Chemistry and Biology
- University of Siegen
- 57076 Siegen
- Germany
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23
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Improving extracellular production of Serratia marcescens lytic polysaccharide monooxygenase CBP21 and Aeromonas veronii B565 chitinase Chi92 in Escherichia coli and their synergism. AMB Express 2017; 7:170. [PMID: 28884316 PMCID: PMC5589716 DOI: 10.1186/s13568-017-0470-6] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2017] [Accepted: 08/29/2017] [Indexed: 11/10/2022] Open
Abstract
Lytic polysaccharide monooxygenases (LPMOs) can oxidize recalcitrant polysaccharides and boost the conversion of the second most abundant polysaccharide chitin by chitinase. In this study, we aimed to achieve the efficient extracellular production of Serratia marcescens LPMO CBP21 and Aeromonas veronii B565 chitinase Chi92 by Escherichia coli. Twelve signal peptides reported with high secretion efficiency were screened to assess the extracellular production efficiency of CBP21 and Chi92, with glycine used as a medium supplement. The results showed that PelB was the most productive signal peptide for the extracellular production of CBP21 and Chi92 in E. coli. Furthermore, CBP21 facilitated the degradation of the three chitin substrates (colloidal chitin, β-chitin, and α-chitin) by Chi92. This study will be valuable for the industrial production and application of the two enzymes for chitin degradation.
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24
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Veliz EA, Martínez-Hidalgo P, Hirsch AM. Chitinase-producing bacteria and their role in biocontrol. AIMS Microbiol 2017; 3:689-705. [PMID: 31294182 PMCID: PMC6604996 DOI: 10.3934/microbiol.2017.3.689] [Citation(s) in RCA: 86] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2017] [Accepted: 07/19/2017] [Indexed: 11/30/2022] Open
Abstract
Chitin is an important component of the exteriors of insects and fungi. Upon degradation of chitin by a number of organisms, severe damage and even death may occur in pathogens and pests whose external surfaces contain this polymer. Currently, chemical fungicides and insecticides are the major means of controlling these disease-causing agents. However, due to the potential harm that these chemicals cause to the environment and to human and animal health, new strategies are being developed to replace or reduce the use of fungal- and pest-killing compounds in agriculture. In this context, chitinolytic microorganisms are likely to play an important role as biocontrol agents and pathogen antagonists and may also function in the control of postharvest rot. In this review, we discuss the literature concerning chitin and the basic knowledge of chitin-degrading enzymes, and also describe the biocontrol effects of chitinolytic microorganisms and their potential use as more sustainable pesticides and fungicides in the field.
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Affiliation(s)
- Esteban A Veliz
- Department of Molecular Cell and Developmental Biology, Molecular Biology Institute, University of California, Los Angeles, 90095-1606, USA
| | | | - Ann M Hirsch
- Department of Molecular Cell and Developmental Biology, Molecular Biology Institute, University of California, Los Angeles, 90095-1606, USA
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Physiological and Molecular Understanding of Bacterial Polysaccharide Monooxygenases. Microbiol Mol Biol Rev 2017; 81:81/3/e00015-17. [PMID: 28659491 DOI: 10.1128/mmbr.00015-17] [Citation(s) in RCA: 50] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Bacteria have long been known to secrete enzymes that degrade cellulose and chitin. The degradation of these two polymers predominantly involves two enzyme families that work synergistically with one another: glycoside hydrolases (GHs) and polysaccharide monooxygenases (PMOs). Although bacterial PMOs are a relatively recent addition to the known biopolymer degradation machinery, there is an extensive amount of literature implicating PMO in numerous physiological roles. This review focuses on these diverse and physiological aspects of bacterial PMOs, including facilitating endosymbiosis, conferring a nutritional advantage, and enhancing virulence in pathogenic organisms. We also discuss the correlation between the presence of PMOs and bacterial lifestyle and speculate on the advantages conferred by PMOs under these conditions. In addition, the molecular aspects of bacterial PMOs, as well as the mechanisms regulating PMO expression and the function of additional domains associated with PMOs, are described. We anticipate that increasing research efforts in this field will continue to expand our understanding of the molecular and physiological roles of bacterial PMOs.
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Unhelkar MH, Duong VT, Enendu KN, Kelly JE, Tahir S, Butts CT, Martin RW. Structure prediction and network analysis of chitinases from the Cape sundew, Drosera capensis. Biochim Biophys Acta Gen Subj 2017; 1861:636-643. [PMID: 28040565 PMCID: PMC6679993 DOI: 10.1016/j.bbagen.2016.12.007] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2016] [Revised: 12/06/2016] [Accepted: 12/09/2016] [Indexed: 12/28/2022]
Abstract
BACKGROUND Carnivorous plants possess diverse sets of enzymes with novel functionalities applicable to biotechnology, proteomics, and bioanalytical research. Chitinases constitute an important class of such enzymes, with future applications including human-safe antifungal agents and pesticides. Here, we compare chitinases from the genome of the carnivorous plant Drosera capensis to those from related carnivorous plants and model organisms. METHODS Using comparative modeling, in silico maturation, and molecular dynamics simulation, we produce models of the mature enzymes in aqueous solution. We utilize network analytic techniques to identify similarities and differences in chitinase topology. RESULTS Here, we report molecular models and functional predictions from protein structure networks for eleven new chitinases from D. capensis, including a novel class IV chitinase with two active domains. This architecture has previously been observed in microorganisms but not in plants. We use a combination of comparative and de novo structure prediction followed by molecular dynamics simulation to produce models of the mature forms of these proteins in aqueous solution. Protein structure network analysis of these and other plant chitinases reveal characteristic features of the two major chitinase families. GENERAL SIGNIFICANCE This work demonstrates how computational techniques can facilitate quickly moving from raw sequence data to refined structural models and comparative analysis, and to select promising candidates for subsequent biochemical characterization. This capability is increasingly important given the large and growing body of data from high-throughput genome sequencing, which makes experimental characterization of every target impractical.
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Affiliation(s)
- Megha H Unhelkar
- Department of Chemistry, University of California, Irvine, Irvine, CA 92697, USA
| | - Vy T Duong
- Department of Chemistry, University of California, Irvine, Irvine, CA 92697, USA; Department of Molecular Biology and Biochemistry, University of California, Irvine, Irvine, CA 92697, USA
| | - Kaosoluchi N Enendu
- Department of Molecular Biology and Biochemistry, University of California, Irvine, Irvine, CA 92697, USA
| | - John E Kelly
- Department of Chemistry, University of California, Irvine, Irvine, CA 92697, USA
| | - Seemal Tahir
- Department of Chemistry, University of California, Irvine, Irvine, CA 92697, USA
| | - Carter T Butts
- Department of Sociology, University of California, Irvine, Irvine, CA 92697, USA; Department of Electrical Engineering and Computer Science, University of California, Irvine, Irvine, CA 92697, USA; Department of Statistics, University of California, Irvine, CA 92697, USA.
| | - Rachel W Martin
- Department of Chemistry, University of California, Irvine, Irvine, CA 92697, USA; Department of Molecular Biology and Biochemistry, University of California, Irvine, Irvine, CA 92697, USA.
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Vicente CSL, Nascimento FX, Barbosa P, Ke HM, Tsai IJ, Hirao T, Cock PJA, Kikuchi T, Hasegawa K, Mota M. Evidence for an Opportunistic and Endophytic Lifestyle of the Bursaphelenchus xylophilus-Associated Bacteria Serratia marcescens PWN146 Isolated from Wilting Pinus pinaster. MICROBIAL ECOLOGY 2016; 72:669-681. [PMID: 27461253 DOI: 10.1007/s00248-016-0820-y] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2016] [Accepted: 07/08/2016] [Indexed: 06/06/2023]
Abstract
Pine wilt disease (PWD) results from the interaction of three elements: the pathogenic nematode, Bursaphelenchus xylophilus; the insect-vector, Monochamus sp.; and the host tree, mostly Pinus species. Bacteria isolated from B. xylophilus may be a fourth element in this complex disease. However, the precise role of bacteria in this interaction is unclear as both plant-beneficial and as plant-pathogenic bacteria may be associated with PWD. Using whole genome sequencing and phenotypic characterization, we were able to investigate in more detail the genetic repertoire of Serratia marcescens PWN146, a bacterium associated with B. xylophilus. We show clear evidence that S. marcescens PWN146 is able to withstand and colonize the plant environment, without having any deleterious effects towards a susceptible host (Pinus thunbergii), B. xylophilus nor to the nematode model C. elegans. This bacterium is able to tolerate growth in presence of xenobiotic/organic compounds, and use phenylacetic acid as carbon source. Furthermore, we present a detailed list of S. marcescens PWN146 potentials to interfere with plant metabolism via hormonal pathways and/or nutritional acquisition, and to be competitive against other bacteria and/or fungi in terms of resource acquisition or production of antimicrobial compounds. Further investigation is required to understand the role of bacteria in PWD. We have now reinforced the theory that B. xylophilus-associated bacteria may have a plant origin.
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Affiliation(s)
- Cláudia S L Vicente
- NemaLab/ICAAM-Institute of Mediterranean Agricultural and Environmental Sciences, Biology Department, University of Évora, Évora, Portugal.
- Department of Environmental Biology, Chubu University, Kasugai, Japan.
| | - Francisco X Nascimento
- NemaLab/ICAAM-Institute of Mediterranean Agricultural and Environmental Sciences, Biology Department, University of Évora, Évora, Portugal
- Departamento de Microbiologia, Laboratório de Microbiologia do Solo, Universidade Federal de Santa Catarina, Florianópolis, Brazil
| | - Pedro Barbosa
- NemaLab/ICAAM-Institute of Mediterranean Agricultural and Environmental Sciences, Biology Department, University of Évora, Évora, Portugal
| | - Huei-Mien Ke
- Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
- Ph.D. Program in Microbial Genomics, National Chung Hsing University and Academia Sinica, Taichung, Taiwan
| | - Isheng J Tsai
- Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
| | - Tomonori Hirao
- Forest Tree Breeding Center, Forestry and Forest Products Research Institute, Ibaraki, Japan
| | - Peter J A Cock
- Information and Computer Sciences group, The James Hutton Institute, Invergowrie, DD2 5DA, Dundee, UK
| | - Taisei Kikuchi
- Division of Parasitology, Faculty of Medicine, University of Miyazaki, Miyazaki, Japan
| | - Koichi Hasegawa
- Department of Environmental Biology, Chubu University, Kasugai, Japan
| | - Manuel Mota
- NemaLab/ICAAM-Institute of Mediterranean Agricultural and Environmental Sciences, Biology Department, University of Évora, Évora, Portugal
- Departamento de Ciências da Vida, Universidade Lusófona de Humanidades e Tecnologias, Lisbon, Portugal
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Antifungal performance of extracellular chitinases and culture supernatants of Streptomyces galilaeus CFFSUR-B12 against Mycosphaerella fijiensis Morelet. World J Microbiol Biotechnol 2016; 32:44. [PMID: 26873555 DOI: 10.1007/s11274-015-1993-0] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2015] [Accepted: 12/07/2015] [Indexed: 10/22/2022]
Abstract
The tropical and mycoparasite strain Streptomyces galilaeus CFFSUR-B12 was evaluated as an antagonist of Mycosphaerella fijiensis Morelet, causal agent of the Black Sigatoka Disease (BSD) of banana. On zymograms of CFFSUR-B12 culture supernatants, we detected four chitinases of approximately 32 kDa (Chi32), 20 kDa (Chi20), and two with masses well over 170 kDa (ChiU) that showed little migration during denaturing electrophoresis at different concentrations of polyacrylamide. The thymol-sulphuric acid assay showed that the ChiU were glycosylated chitinases. Moreover, matrix assisted laser desorption ionization time-of-flight MS analysis revealed that the ChiU are the same protein and identical to a family 18 chitinase from Streptomyces sp. S4 (gi|498328075). Chi32 was similar to an extracellular protein from Streptomyces albus J1074 (gi|478687481) and Chi20 was non-significantly similar to chitinases from five different strains of Streptomyces (P > 0.05). Subsequently, Chi32 and Chi20 were partially purified by anion exchange and hydrophobic interaction chromatography and tested against M. fijiensis. Chitinases failed to inhibit ascospore germination, but inhibited up to 35 and 62% of germ tube elongation and mycelial growth, respectively. We found that crude culture supernatant and living cells of S. galilaeus CFFSUR-B12 were the most effective in inhibiting M. fijiensis and are potential biocontrol agents of BSD.
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Li P, Kwok AHY, Jiang J, Ran T, Xu D, Wang W, Leung FC. Comparative genome analyses of Serratia marcescens FS14 reveals its high antagonistic potential. PLoS One 2015; 10:e0123061. [PMID: 25856195 PMCID: PMC4391916 DOI: 10.1371/journal.pone.0123061] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2014] [Accepted: 02/16/2015] [Indexed: 11/19/2022] Open
Abstract
S. marcescens FS14 was isolated from an Atractylodes macrocephala Koidz plant that was infected by Fusarium oxysporum and showed symptoms of root rot. With the completion of the genome sequence of FS14, the first comprehensive comparative-genomic analysis of the Serratia genus was performed. Pan-genome and COG analyses showed that the majority of the conserved core genes are involved in basic cellular functions, while genomic factors such as prophages contribute considerably to genome diversity. Additionally, a Type I restriction-modification system, a Type III secretion system and tellurium resistance genes are found in only some Serratia species. Comparative analysis further identified that S. marcescens FS14 possesses multiple mechanisms for antagonism against other microorganisms, including the production of prodigiosin, bacteriocins, and multi-antibiotic resistant determinants as well as chitinases. The presence of two evolutionarily distinct Type VI secretion systems (T6SSs) in FS14 may provide further competitive advantages for FS14 against other microbes. To our knowledge, this is the first report of comparative analysis on T6SSs in the genus, which identifies four types of T6SSs in Serratia spp.. Competition bioassays of FS14 against the vital plant pathogenic bacterium Ralstonia solanacearum and fungi Fusarium oxysporum and Sclerotinia sclerotiorum were performed to support our genomic analyses, in which FS14 demonstrated high antagonistic activities against both bacterial and fungal phytopathogens.
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Affiliation(s)
- Pengpeng Li
- Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
| | - Amy H. Y. Kwok
- Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
| | - Jingwei Jiang
- Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
- School of Biological Sciences, University of Hong Kong, Hong Kong Special Administration Region, China
| | - Tingting Ran
- College of Life Sciences, Nanjing Agricultural University, Nanjing, China
| | - Dongqing Xu
- College of Life Sciences, Nanjing Agricultural University, Nanjing, China
| | - Weiwu Wang
- College of Life Sciences, Nanjing Agricultural University, Nanjing, China
| | - Frederick C. Leung
- Bioinformatics Center, Nanjing Agricultural University, Nanjing, China
- School of Biological Sciences, University of Hong Kong, Hong Kong Special Administration Region, China
- * E-mail:
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Nakagawa YS, Kudo M, Loose JSM, Ishikawa T, Totani K, Eijsink VGH, Vaaje-Kolstad G. A small lytic polysaccharide monooxygenase fromStreptomyces griseustargeting α- and β-chitin. FEBS J 2015; 282:1065-79. [DOI: 10.1111/febs.13203] [Citation(s) in RCA: 56] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2014] [Revised: 01/10/2015] [Accepted: 01/15/2015] [Indexed: 12/19/2022]
Affiliation(s)
- Yuko S. Nakagawa
- Department of Chemical Engineering; National Institute of Technology; Ichinoseki College; Japan
| | - Madoka Kudo
- Department of Chemical Engineering; National Institute of Technology; Ichinoseki College; Japan
| | - Jennifer S. M. Loose
- Department of Chemistry; Biotechnology and Food Science; Norwegian University of Life Sciences; Ås Norway
| | - Takahiro Ishikawa
- Department of Chemical Engineering; National Institute of Technology; Ichinoseki College; Japan
| | - Kazuhide Totani
- Department of Chemical Engineering; National Institute of Technology; Ichinoseki College; Japan
| | - Vincent G. H. Eijsink
- Department of Chemistry; Biotechnology and Food Science; Norwegian University of Life Sciences; Ås Norway
| | - Gustav Vaaje-Kolstad
- Department of Chemistry; Biotechnology and Food Science; Norwegian University of Life Sciences; Ås Norway
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Paspaliari DK, Loose JSM, Larsen MH, Vaaje-Kolstad G. Listeria monocytogeneshas a functional chitinolytic system and an active lytic polysaccharide monooxygenase. FEBS J 2015; 282:921-36. [DOI: 10.1111/febs.13191] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2014] [Revised: 12/19/2014] [Accepted: 01/05/2015] [Indexed: 01/12/2023]
Affiliation(s)
- Dafni K. Paspaliari
- Department of Veterinary Disease Biology; Faculty of Health and Medical Sciences; University of Copenhagen; Denmark
| | - Jennifer S. M. Loose
- Department of Chemistry; Biotechnology and Food Science; Norwegian University of Life Sciences; Ås Norway
| | - Marianne H. Larsen
- Department of Veterinary Disease Biology; Faculty of Health and Medical Sciences; University of Copenhagen; Denmark
| | - Gustav Vaaje-Kolstad
- Department of Chemistry; Biotechnology and Food Science; Norwegian University of Life Sciences; Ås Norway
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Catalytic efficiency of chitinase-D on insoluble chitinous substrates was improved by fusing auxiliary domains. PLoS One 2015; 10:e0116823. [PMID: 25615694 PMCID: PMC4304778 DOI: 10.1371/journal.pone.0116823] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2014] [Accepted: 12/15/2014] [Indexed: 11/20/2022] Open
Abstract
Chitin is an abundant renewable polysaccharide, next only to cellulose. Chitinases are important for effective utilization of this biopolymer. Chitinase D from Serratia proteamaculans (SpChiD) is a single domain chitinase with both hydrolytic and transglycosylation (TG) activities. SpChiD had less of hydrolytic activity on insoluble polymeric chitin substrates due to the absence of auxiliary binding domains. We improved catalytic efficiency of SpChiD in degradation of insoluble chitin substrates by fusing with auxiliary domains like polycystic kidney disease (PKD) domain and chitin binding protein 21 (CBP21). Of the six different SpChiD fusion chimeras, two C-terminal fusions viz. ChiD+PKD and ChiD+CBP resulted in improved hydrolytic activity on α- and β-chitin, respectively. Time-course degradation of colloidal chitin also confirmed that these two C-terminal SpChiD fusion chimeras were more active than other chimeras. More TG products were produced for a longer duration by the fusion chimeras ChiD+PKD and PKD+ChiD+CBP.
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Characterization and optimization of heterologous expression in Escherichia coli of the chitinase encoded by the chiA gene of Bacillus halodurans C-125. Process Biochem 2014. [DOI: 10.1016/j.procbio.2014.06.020] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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Chang CL, Geib S, Cho IK, Li QX, Stanley D. Dietary lufenuron reduces egg hatch and influences protein expression in the fruit fly Bactrocera latifrons (Hendel). ARCHIVES OF INSECT BIOCHEMISTRY AND PHYSIOLOGY 2014; 86:193-208. [PMID: 24753137 DOI: 10.1002/arch.21169] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Lufenuron (LFN), a chitin synthase inhibitor, impacts the fertility of Ceratitis capitata, Bactrocera dorsalis, B. cucurbitae, and B. latifrons. We posed the hypothesis that LFN curtails egg hatch in the solanaceous fruit fly, B. latifrons. In this study, newly emerged virgin adults were sexed and fed for 12 days with varying concentrations of LFN-laced agar diets until sexual maturation. Eggs were collected from 12-d-old adults and the egg hatch was assessed. Egg hatch decreased in adults reared on LFN-treated diets. LFN-treated media did not influence fertility after one gender was reared on experimental and the other on control media before mating. Exposure to LFN-treated medium after mating led to reduced egg hatch. We infer that LFN is not a permanent sterilant, and reduced egg hatch depends on continuous exposure to dietary LFN after mating. Proteomic analysis identified two differentially expressed proteins, a pheromone binding protein and a chitin binding protein, between adults maintained on LFN-treated and control diets. Expression of two genes encoding chitin synthase 2, and chitin binding protein, was altered in adults exposed to dietary LFN. LFN treatments also led to increased expression of two odorant binding proteins one in females and one in males. We surmise these data support our hypothesis and provide insight into LFN actions.
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Wang M, Xing Y, Wang J, Xu Y, Wang G. The role of the chi1 gene from the endophytic bacteria Serratia proteamaculans 336x in the biological control of wheat take-all. Can J Microbiol 2014; 60:533-40. [DOI: 10.1139/cjm-2014-0212] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Take-all, a disease caused by the fungus Gaeumannomyces graminis var. tritici, is the most important root disease of wheat and causes severe yield losses worldwide. Using microorganisms as biological agents to control the disease is important because no resistant cultivars or effective chemical fungicides are available. In this study, we tested the biological control capability of a chitinase produced by the endophytic bacterium Serratia proteamaculans 336x against wheat take-all. The chitinase gene chi1 of S. proteamaculans 336x was cloned and heterologously expressed in Escherichia coli. The recombinant protein exhibited chitinase activity and in vitro antifungal activity against G. graminis var. tritici. With in-frame deletion of the chi1 gene by homologous recombination, the chi1-deleted mutant was devoid of chitinase activity and the biocontrol efficacy was reduced by 42.5%. The complementation of the Δchi1 mutant strain by the chi1 gene resulted in the partial restoration of the chitinase activity and biocontrol efficacy. These results support a role for the Chi1 protein in the biocontrol process of S. proteamaculans 336x against wheat take-all.
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Affiliation(s)
- Miao Wang
- School of Life Sciences, Henan University, Kaifeng 475001, Henan, People’s Republic of China
| | - Yuwan Xing
- School of Life Sciences, Henan University, Kaifeng 475001, Henan, People’s Republic of China
| | - Junfang Wang
- School of Life Sciences, Henan University, Kaifeng 475001, Henan, People’s Republic of China
| | - Yubin Xu
- School of Life Sciences, Henan University, Kaifeng 475001, Henan, People’s Republic of China
| | - Gang Wang
- State Key Laboratory of Cotton Biology, Henan University, Kaifeng 475001, Henan, People’s Republic of China
- The Institute of Bioengineering, Henan University, Kaifeng 475001, Henan, People’s Republic of China
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Affiliation(s)
- Hisashi Kimoto
- Department of Bioscience, Faculty of Biotechnology, Fukui Prefectural University
| | - Takafumi Itoh
- Department of Bioscience, Faculty of Biotechnology, Fukui Prefectural University
| | - Takao Hibi
- Department of Bioscience, Faculty of Biotechnology, Fukui Prefectural University
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Sehar U, Mehmood MA, Hussain K, Nawaz S, Nadeem S, Siddique MH, Nadeem H, Gull M, Ahmad N, Sohail I, Gill SS, Majeed S. Domain wise docking analyses of the modular chitin binding protein CBP50 from Bacillus thuringiensis serovar konkukian S4. Bioinformation 2013; 9:901-7. [PMID: 24307767 PMCID: PMC3842575 DOI: 10.6026/97320630009901] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2013] [Accepted: 10/19/2013] [Indexed: 11/23/2022] Open
Abstract
This paper presents an in silico characterization of the chitin binding protein CBP50 from B. thuringiensis serovar konkukian S4 through homology modeling and molecular docking. The CBP50 has shown a modular structure containing an N-terminal CBM33 domain, two consecutive fibronectin-III (Fn-III) like domains and a C-terminal CBM5 domain. The protein presented a unique modular structure which could not be modeled using ordinary procedures. So, domain wise modeling using MODELLER and docking analyses using Autodock Vina were performed. The best conformation for each domain was selected using standard procedure. It was revealed that four amino acid residues Glu-71, Ser-74, Glu-76 and Gln-90 from N-terminal domain are involved in protein-substrate interaction. Similarly, amino acid residues Trp-20, Asn-21, Ser-23 and Val-30 of Fn-III like domains and Glu-15, Ala-17, Ser-18 and Leu-35 of C-terminal domain were involved in substrate binding. Site-directed mutagenesis of these proposed amino acid residues in future will elucidate the key amino acids involved in chitin binding activity of CBP50 protein.
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Affiliation(s)
- Ujala Sehar
- Department of Bioinformatics and Biotechnology, Faculty of Science & Technology, Government College University Faisalabad, Faisalabad, Pakistan
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Adrangi S, Faramarzi MA. From bacteria to human: a journey into the world of chitinases. Biotechnol Adv 2013; 31:1786-95. [PMID: 24095741 DOI: 10.1016/j.biotechadv.2013.09.012] [Citation(s) in RCA: 136] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2012] [Revised: 09/26/2013] [Accepted: 09/28/2013] [Indexed: 12/28/2022]
Abstract
Chitinases, the enzymes responsible for the biological degradation of chitin, are found in a wide range of organisms from bacteria to higher plants and animals. They participate in numerous physiological processes such as nutrition, parasitism, morphogenesis and immunity. Many organisms, in addition to chitinases, produce inactive chitinase-like lectins that despite lacking enzymatic activity are involved in several regulatory functions. Most known chitinases belong to families 18 and 19 of glycosyl hydrolases, however a few chitinases that belong to families 23 and 48 have also been identified in recent years. In this review, different aspects of chitinases and chi-lectins from bacteria, fungi, insects, plants and mammals are discussed.
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Affiliation(s)
- Sina Adrangi
- Department of Pharmaceutical Biotechnology, School of Pharmacy, Shahid Beheshti University of Medical Sciences, Tehran, Iran
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Cooperative degradation of chitin by extracellular and cell surface-expressed chitinases from Paenibacillus sp. strain FPU-7. Appl Environ Microbiol 2013; 79:7482-90. [PMID: 24077704 DOI: 10.1128/aem.02483-13] [Citation(s) in RCA: 57] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023] Open
Abstract
Chitin, a major component of fungal cell walls and invertebrate cuticles, is an exceedingly abundant polysaccharide, ranking next to cellulose. Industrial demand for chitin and its degradation products as raw materials for fine chemical products is increasing. A bacterium with high chitin-decomposing activity, Paenibacillus sp. strain FPU-7, was isolated from soil by using a screening medium containing α-chitin powder. Although FPU-7 secreted several extracellular chitinases and thoroughly digested the powder, the extracellular fluid alone broke them down incompletely. Based on expression cloning and phylogenetic analysis, at least seven family 18 chitinase genes were found in the FPU-7 genome. Interestingly, the product of only one gene (chiW) was identified as possessing three S-layer homology (SLH) domains and two glycosyl hydrolase family 18 catalytic domains. Since SLH domains are known to function as anchors to the Gram-positive bacterial cell surface, ChiW was suggested to be a novel multimodular surface-expressed enzyme and to play an important role in the complete degradation of chitin. Indeed, the ChiW protein was localized on the cell surface. Each of the seven chitinase genes (chiA to chiF and chiW) was cloned and expressed in Escherichia coli cells for biochemical characterization of their products. In particular, ChiE and ChiW showed high activity for insoluble chitin. The high chitinolytic activity of strain FPU-7 and the chitinases may be useful for environmentally friendly processing of chitin in the manufacture of food and/or medicine.
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40
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Sehar U, Mehmood MA, Nawaz S, Nadeem S, Hussain K, Sohail I, Tabassum MR, Gill SS, Saqib A. Three dimensional (3D) structure prediction and substrate-protein interaction study of the chitin binding protein CBP24 from B. thuringiensis. Bioinformation 2013; 9:725-9. [PMID: 23976829 PMCID: PMC3746096 DOI: 10.6026/97320630009725] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2013] [Accepted: 07/25/2013] [Indexed: 12/03/2022] Open
Abstract
Bacillus thuringiensis is an insecticidal bacterium whose chitinolytic system has been exploited to improve insect resistance in crops. In the present study, we studied the CBP24 from B. thuringiensis using homology modeling and molecular docking. The primary and secondary structure analyses showed CBP24 is a positively charged protein and contains single domain that belongs to family CBM33. The 3D model after refinement was used to explore the chitin binding characteristics of CBP24 using AUTODOCK. The docking analyses have shown that the surface exposed hydrophilic amino acid residues Thr-103, Lys-112 and Ser-162 interact with substrate through H-bonding. While, the amino acids resides Glu-39, Tyr-46, Ser-104 and Asn-109 were shown to have polar interactions with the substrate. The binding energy values evaluation of docking depicts a stable intermolecular conformation of the docked complex. The functional characterization of the CBP24 will elucidate the substrate-interaction pathway of the protein in specific and the carbohydrate binding proteins in general leading towards the exploration and exploitation of the prokaryotic substrate utilization pathways.
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Affiliation(s)
- Ujala Sehar
- Department of Bioinformatics and Biotechnology, Faculty of Science & Technology, Government College University, Faisalabad, Pakistan
| | - Muhammad Aamer Mehmood
- Department of Bioinformatics and Biotechnology, Faculty of Science & Technology, Government College University, Faisalabad, Pakistan
| | - Salman Nawaz
- Department of Biosciences, COMSATS Institute of Information Technology, Islamabad, Pakistan
| | - Shahid Nadeem
- Department of Bioinformatics and Biotechnology, Faculty of Science & Technology, Government College University, Faisalabad, Pakistan
- Nuclear Institute for Agriculture and Biology, Faisalabad, Pakistan
| | - Khadim Hussain
- Department of Bioinformatics and Biotechnology, Faculty of Science & Technology, Government College University, Faisalabad, Pakistan
| | - Iqra Sohail
- Department of Bioinformatics and Biotechnology, Faculty of Science & Technology, Government College University, Faisalabad, Pakistan
| | - Muhammad Rizwan Tabassum
- Department of Bioinformatics and Biotechnology, Faculty of Science & Technology, Government College University, Faisalabad, Pakistan
| | - Saba Shahid Gill
- Department of Bioinformatics and Biotechnology, Faculty of Science & Technology, Government College University, Faisalabad, Pakistan
| | - Anam Saqib
- Department of Bioinformatics and Biotechnology, Faculty of Science & Technology, Government College University, Faisalabad, Pakistan
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Characterization of a Chitin-Binding Protein from Bacillus thuringiensis HD-1. PLoS One 2013; 8:e66603. [PMID: 23824872 PMCID: PMC3688941 DOI: 10.1371/journal.pone.0066603] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2013] [Accepted: 05/07/2013] [Indexed: 11/19/2022] Open
Abstract
Strains of Bacillus thuringiensis produce insecticidal proteins. These strains have been isolated from diverse ecological niches, such as soil, phylloplane, insect cadavers and grain dust. To effectively propagate, these strains produce a range of molecules that facilitate its multiplication in a competing environment. In this report, we have examined synthesis of a chitin-binding protein and evaluated its effect on fungi encountered in environment and its interaction with insecticidal proteins synthesized by B. thuringiensis. The gene encoding chitin-binding protein has been cloned and expressed. The purified protein has been demonstrated to interact with Cry insecticidal protein, Cry1Ac by Circular Dichrosim spectroscopy (CD) and in vitro pull down assays. The chitin-binding protein potentiates insecticidal activity of bacillar insecticidal protein, Cry1Ac. Further, chitin-binding protein was fungistatic against several soil fungi. The chitin binding protein is expressed in spore mother cell and deposited along with insecticidal protein, Cry1Ac. It interacts with Cry1Ac to potentiate its insecticidal activity and facilitate propagation of Bacillus strain in environment by inhibiting growth of certain fungi.
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Ekwe E, Morgenstern I, Tsang A, Storms R, Powlowski J. Non-Hydrolytic Cellulose Active Proteins: Research Progress and Potential Application in Biorefineries. Ind Biotechnol (New Rochelle N Y) 2013. [DOI: 10.1089/ind.2013.0010] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Affiliation(s)
- Enongene Ekwe
- Centre for Structural and Functional Genomics, Concordia University, Montreal, Quebec, Canada
- Department of Chemistry and Biochemistry, Concordia University, Montreal, Quebec, Canada
| | - Ingo Morgenstern
- Centre for Structural and Functional Genomics, Concordia University, Montreal, Quebec, Canada
- Department of Biology, Concordia University, Montreal, Quebec, Canada
| | - Adrian Tsang
- Centre for Structural and Functional Genomics, Concordia University, Montreal, Quebec, Canada
- Department of Biology, Concordia University, Montreal, Quebec, Canada
| | - Reginald Storms
- Centre for Structural and Functional Genomics, Concordia University, Montreal, Quebec, Canada
- Department of Biology, Concordia University, Montreal, Quebec, Canada
| | - Justin Powlowski
- Centre for Structural and Functional Genomics, Concordia University, Montreal, Quebec, Canada
- Department of Chemistry and Biochemistry, Concordia University, Montreal, Quebec, Canada
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43
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Vaaje-Kolstad G, Horn SJ, Sørlie M, Eijsink VGH. The chitinolytic machinery ofSerratia marcescens- a model system for enzymatic degradation of recalcitrant polysaccharides. FEBS J 2013; 280:3028-49. [DOI: 10.1111/febs.12181] [Citation(s) in RCA: 210] [Impact Index Per Article: 19.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2013] [Revised: 01/30/2013] [Accepted: 02/05/2013] [Indexed: 01/13/2023]
Affiliation(s)
- Gustav Vaaje-Kolstad
- Department of Chemistry; Biotechnology and Food Science; Norwegian University of Life Sciences; Ås; Norway
| | - Svein J. Horn
- Department of Chemistry; Biotechnology and Food Science; Norwegian University of Life Sciences; Ås; Norway
| | - Morten Sørlie
- Department of Chemistry; Biotechnology and Food Science; Norwegian University of Life Sciences; Ås; Norway
| | - Vincent G. H. Eijsink
- Department of Chemistry; Biotechnology and Food Science; Norwegian University of Life Sciences; Ås; Norway
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Manjeet K, Purushotham P, Neeraja C, Podile AR. Bacterial chitin binding proteins show differential substrate binding and synergy with chitinases. Microbiol Res 2013; 168:461-8. [PMID: 23480960 DOI: 10.1016/j.micres.2013.01.006] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2012] [Revised: 12/22/2012] [Accepted: 01/17/2013] [Indexed: 11/25/2022]
Abstract
Glycosyl hydrolase (GH) family 18 chitinases (Chi) and family 33 chitin binding proteins (CBPs) from Bacillus thuringiensis serovar kurstaki (BtChi and BtCBP), B. licheniformis DSM13 (BliChi and BliCBP) and Serratia proteamaculans 568 (SpChiB and SpCBP21) were used to study the efficiency and synergistic action of BtChi, BliChi and SpChiB individually with BtCBP, BliCBP or SpCBP21. Chitinase assay revealed that only BtChi and SpChiB showed synergism in hydrolysis of chitin, while there was no increase in products generated by BliChi, in the presence of the three above mentioned CBPs. This suggests that some (specific) CBPs are able to exert a synergistic effect on (specific) chitinases. A mutant of BliChi, designated as BliGH, was constructed by deleting the C-terminal fibronectin III (FnIII) and carbohydrate binding module 5 (CBM5) to assess the contribution of FnIII and CBM5 domains in the synergistic interactions of GH18 chitinases with CBPs. Chitinase assay with BliGH revealed that the accessory domains play a major role in making BliChi an efficient enzyme. We studied binding of BtCBP and BliCBP to α- and β-chitin. The BtCBP, BliCBP or SpCBP21 did not act synergistically with chitinases in hydrolysis of the chitin, interspersed with other polymers, present in fungal cell walls.
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Affiliation(s)
- Kaur Manjeet
- Department of Plant Sciences, School of Life Sciences, University of Hyderabad, Andhra Pradesh, India
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Synthesis of long-chain chitooligosaccharides by a hypertransglycosylating processive endochitinase of Serratia proteamaculans 568. J Bacteriol 2012; 194:4260-71. [PMID: 22685288 DOI: 10.1128/jb.06473-11] [Citation(s) in RCA: 59] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
We describe the heterologous expression and characterization of a 407-residue single-domain glycosyl hydrolase family 18 chitinase (SpChiD) from Gram-negative Serratia proteamaculans 568 that has unprecedented catalytic properties. SpChiD was optimally active at pH 6.0 and 40 °C, where it showed a K(m) of 83 mg ml(-1), a k(cat) of 3.9 × 10(2) h(-1), and a k(cat)/K(m) of 4.7 h mg(-1) ml(-1) on colloidal chitin. On chitobiose, the K(m), k(cat), and k(cat)/K(m) were 203 μM, 1.3 × 10(2) h(-1), and 0.62 h(-1) μM(-1), respectively. Hydrolytic activity on chitooligosaccharides (CHOS) and colloidal chitin indicated that SpChiD was an endo-acting processive enzyme, with the unique ability to convert released chitobiose to N-acetylglucosamine, the major end product. SpChiD showed hyper transglycosylation (TG) with trimer-hexamer CHOS substrates, generating considerable amounts of long-chain CHOS. The TG activity of SpChiD was dependent on both the length and concentration of the oligomeric substrate and also on the enzyme concentration. The length and amount of accumulated TG products increased with increases in the length of the substrate and its concentration and decreased with increases in the enzyme concentration. The SpChiD bound to insoluble and soluble chitin substrates despite the absence of accessory domains. Sequence alignments and structural modeling indicated that SpChiD would have a deep substrate-binding groove lined with aromatic residues, which is characteristic of processive enzymes. SpChiD shows a combination of properties that seems rare among family 18 chitinases and that may resemble the properties of human chitotriosidase.
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