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Quan ND, Nguyen NL, Giang TTH, Ngan NTT, Hien NT, Tung NV, Trang NHT, Lien NTK, Nguyen HH. Genome Characteristics of the Endophytic Fungus Talaromyces sp. DC2 Isolated from Catharanthus roseus (L.) G. Don. J Fungi (Basel) 2024; 10:352. [PMID: 38786707 PMCID: PMC11122143 DOI: 10.3390/jof10050352] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2024] [Revised: 05/06/2024] [Accepted: 05/08/2024] [Indexed: 05/25/2024] Open
Abstract
Talaromyces sp. DC2 is an endophytic fungus that was isolated from the stem of Catharanthus roseus (L.) G. Don in Hanoi, Vietnam and is capable of producing vinca alkaloids. This study utilizes the PacBio Sequel technology to completely sequence the whole genome of Talaromyces sp. DC2The genome study revealed that DC2 contains a total of 34.58 Mb spanned by 156 contigs, with a GC content of 46.5%. The identification and prediction of functional protein-coding genes, tRNA, and rRNA were comprehensively predicted and highly annotated using various BLAST databases, including non-redundant (Nr) protein sequence, Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), Clusters of Orthologous Groups (COG), and Carbohydrate-Active Enzymes (CAZy) databases. The genome of DC2 has a total of 149, 227, 65, 153, 53, and 6 genes responsible for cellulose, hemicellulose, lignin, pectin, chitin, starch, and inulin degradation, respectively. The Antibiotics and Secondary Metabolites Analysis Shell (AntiSMASH) analyses revealed that strain DC2 possesses 20 biosynthetic gene clusters responsible for producing secondary metabolites. The strain DC2 has also been found to harbor the DDC gene encoding aromatic L-amino acid decarboxylase enzyme. Conclusively, this study has provided a comprehensive understanding of the processes involved in secondary metabolites and the ability of the Talaromyces sp. DC2 strain to degrade plant cell walls.
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Affiliation(s)
- Nguyen Duc Quan
- Institute of Genome Research, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam; (N.D.Q.); (N.-L.N.); (T.T.H.G.); (N.T.T.N.); (N.T.H.); (N.V.T.); (N.H.T.T.); (N.T.K.L.)
| | - Ngoc-Lan Nguyen
- Institute of Genome Research, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam; (N.D.Q.); (N.-L.N.); (T.T.H.G.); (N.T.T.N.); (N.T.H.); (N.V.T.); (N.H.T.T.); (N.T.K.L.)
- Department of Biotechnology, Graduate University of Science and Technology, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam
| | - Tran Thi Huong Giang
- Institute of Genome Research, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam; (N.D.Q.); (N.-L.N.); (T.T.H.G.); (N.T.T.N.); (N.T.H.); (N.V.T.); (N.H.T.T.); (N.T.K.L.)
| | - Nguyen Thi Thanh Ngan
- Institute of Genome Research, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam; (N.D.Q.); (N.-L.N.); (T.T.H.G.); (N.T.T.N.); (N.T.H.); (N.V.T.); (N.H.T.T.); (N.T.K.L.)
- Department of Biotechnology, Graduate University of Science and Technology, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam
| | - Nguyen Thanh Hien
- Institute of Genome Research, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam; (N.D.Q.); (N.-L.N.); (T.T.H.G.); (N.T.T.N.); (N.T.H.); (N.V.T.); (N.H.T.T.); (N.T.K.L.)
| | - Nguyen Van Tung
- Institute of Genome Research, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam; (N.D.Q.); (N.-L.N.); (T.T.H.G.); (N.T.T.N.); (N.T.H.); (N.V.T.); (N.H.T.T.); (N.T.K.L.)
- Department of Biotechnology, Graduate University of Science and Technology, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam
| | - Nguyen Hoang Thanh Trang
- Institute of Genome Research, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam; (N.D.Q.); (N.-L.N.); (T.T.H.G.); (N.T.T.N.); (N.T.H.); (N.V.T.); (N.H.T.T.); (N.T.K.L.)
| | - Nguyen Thi Kim Lien
- Institute of Genome Research, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam; (N.D.Q.); (N.-L.N.); (T.T.H.G.); (N.T.T.N.); (N.T.H.); (N.V.T.); (N.H.T.T.); (N.T.K.L.)
- Department of Biotechnology, Graduate University of Science and Technology, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam
| | - Huy Hoang Nguyen
- Institute of Genome Research, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam; (N.D.Q.); (N.-L.N.); (T.T.H.G.); (N.T.T.N.); (N.T.H.); (N.V.T.); (N.H.T.T.); (N.T.K.L.)
- Department of Biotechnology, Graduate University of Science and Technology, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Str., Cau Giay, Hanoi 100000, Vietnam
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Jia X, Song J, Wu Y, Feng S, Sun Z, Hu Y, Yu M, Han R, Zeng B. Strategies for the Enhancement of Secondary Metabolite Production via Biosynthesis Gene Cluster Regulation in Aspergillus oryzae. J Fungi (Basel) 2024; 10:312. [PMID: 38786667 PMCID: PMC11121810 DOI: 10.3390/jof10050312] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2024] [Revised: 04/17/2024] [Accepted: 04/22/2024] [Indexed: 05/25/2024] Open
Abstract
The filamentous fungus Aspergillus oryzae (A. oryzae) has been extensively used for the biosynthesis of numerous secondary metabolites with significant applications in agriculture and food and medical industries, among others. However, the identification and functional prediction of metabolites through genome mining in A. oryzae are hindered by the complex regulatory mechanisms of secondary metabolite biosynthesis and the inactivity of most of the biosynthetic gene clusters involved. The global regulatory factors, pathway-specific regulatory factors, epigenetics, and environmental signals significantly impact the production of secondary metabolites, indicating that appropriate gene-level modulations are expected to promote the biosynthesis of secondary metabolites in A. oryzae. This review mainly focuses on illuminating the molecular regulatory mechanisms for the activation of potentially unexpressed pathways, possibly revealing the effects of transcriptional, epigenetic, and environmental signal regulation. By gaining a comprehensive understanding of the regulatory mechanisms of secondary metabolite biosynthesis, strategies can be developed to enhance the production and utilization of these metabolites, and potential functions can be fully exploited.
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Affiliation(s)
- Xiao Jia
- College of Pharmacy, Shenzhen Technology University, Shenzhen 518118, China; (X.J.); (J.S.); (Y.W.); (S.F.); (Z.S.); (Y.H.); (M.Y.); (R.H.)
- College of Materials and Energy, Jiangxi Science and Technology Normal University, Nanchang 330013, China
| | - Jiayi Song
- College of Pharmacy, Shenzhen Technology University, Shenzhen 518118, China; (X.J.); (J.S.); (Y.W.); (S.F.); (Z.S.); (Y.H.); (M.Y.); (R.H.)
- College of Life and Health Sciences, Northeastern University, No. 3-11, Wenhua Road, Shenyang 110819, China
| | - Yijian Wu
- College of Pharmacy, Shenzhen Technology University, Shenzhen 518118, China; (X.J.); (J.S.); (Y.W.); (S.F.); (Z.S.); (Y.H.); (M.Y.); (R.H.)
| | - Sai Feng
- College of Pharmacy, Shenzhen Technology University, Shenzhen 518118, China; (X.J.); (J.S.); (Y.W.); (S.F.); (Z.S.); (Y.H.); (M.Y.); (R.H.)
| | - Zeao Sun
- College of Pharmacy, Shenzhen Technology University, Shenzhen 518118, China; (X.J.); (J.S.); (Y.W.); (S.F.); (Z.S.); (Y.H.); (M.Y.); (R.H.)
| | - Yan Hu
- College of Pharmacy, Shenzhen Technology University, Shenzhen 518118, China; (X.J.); (J.S.); (Y.W.); (S.F.); (Z.S.); (Y.H.); (M.Y.); (R.H.)
| | - Mengxue Yu
- College of Pharmacy, Shenzhen Technology University, Shenzhen 518118, China; (X.J.); (J.S.); (Y.W.); (S.F.); (Z.S.); (Y.H.); (M.Y.); (R.H.)
| | - Rui Han
- College of Pharmacy, Shenzhen Technology University, Shenzhen 518118, China; (X.J.); (J.S.); (Y.W.); (S.F.); (Z.S.); (Y.H.); (M.Y.); (R.H.)
| | - Bin Zeng
- College of Pharmacy, Shenzhen Technology University, Shenzhen 518118, China; (X.J.); (J.S.); (Y.W.); (S.F.); (Z.S.); (Y.H.); (M.Y.); (R.H.)
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Cheng X, Ma FP, Yan YM, Zhao WL, Shi J, Xiao W, Bi EG, Luo Q. Aspertaichunol A, an Immunomodulatory Polyketide with an Uncommon Scaffold from the Insect-Derived Endophytic Aspergillus taichungensis SMU01. Org Lett 2022; 24:7405-7409. [DOI: 10.1021/acs.orglett.2c02978] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Xia Cheng
- Department of Nephrology, Integrated Hospital of Traditional Chinese Medicine, Southern Medical University, Guangzhou 510515, China
| | - Fo-Pei Ma
- Guangdong Provincial Key Laboratory of Chinese Medicine Pharmaceutics, School of Traditional Chinese Medicine, Southern Medical University, Guangzhou 510515, China
| | - Yong-Ming Yan
- Institute for Inheritance-Based Innovation of Chinese Medicine, School of Pharmaceutical Sciences, Health Science Center, Shenzhen University, Shenzhen, 518060, China
| | - Wen-Li Zhao
- Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Southern Medical University, Guangzhou, Guangdong 510515, China
| | - Jin Shi
- Neurosurgery Department, Nanfang Hospital, Southern Medical University, Guangzhou 510515, China
| | - Wei Xiao
- Department of Nephrology, Integrated Hospital of Traditional Chinese Medicine, Southern Medical University, Guangzhou 510515, China
| | - En-Guang Bi
- Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Southern Medical University, Guangzhou, Guangdong 510515, China
| | - Qi Luo
- Department of Nephrology, Integrated Hospital of Traditional Chinese Medicine, Southern Medical University, Guangzhou 510515, China
- Guangdong Provincial Key Laboratory of Chinese Medicine Pharmaceutics, School of Traditional Chinese Medicine, Southern Medical University, Guangzhou 510515, China
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Heterologous Expression of Secondary Metabolite Genes in Trichoderma reesei for Waste Valorization. J Fungi (Basel) 2022; 8:jof8040355. [PMID: 35448586 PMCID: PMC9032437 DOI: 10.3390/jof8040355] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2022] [Revised: 03/27/2022] [Accepted: 03/28/2022] [Indexed: 01/07/2023] Open
Abstract
Trichoderma reesei (Hypocrea jecorina) was developed as a microbial cell factory for the heterologous expression of fungal secondary metabolites. This was achieved by inactivation of sorbicillinoid biosynthesis and construction of vectors for the rapid cloning and expression of heterologous fungal biosynthetic genes. Two types of megasynth(et)ases were used to test the strain and vectors, namely a non-reducing polyketide synthase (nr-PKS, aspks1) from Acremonium strictum and a hybrid highly-reducing PKS non-ribosomal peptide synthetase (hr-PKS-NRPS, tenS + tenC) from Beauveria bassiana. The resulting engineered T. reesei strains were able to produce the expected natural products 3-methylorcinaldehyde and pretenellin A on waste materials including potato, orange, banana and kiwi peels and barley straw. Developing T. reesei as a heterologous host for secondary metabolite production represents a new method for waste valorization by the direct conversion of waste biomass into secondary metabolites.
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