Development of a Cre-loxP-based genetic system in Aspergillus niger ATCC1015 and its application to construction of efficient organic acid-producing cell factories

• Published in: Applied microbiology and biotechnology 2019-10, Vol.103 (19), p.8105-8114
• Main Authors: Xu, Yongxue, Shan, Lu, Zhou, Yutao, Xie, Zhoujie, Ball, Andrew S., Cao, Wei, Liu, Hao
• Format: Article
• Language: English
• Subjects: Acetylcholinesterase; Acid production; Acids; Applied Genetics and Molecular Biotechnology; Aspergillus niger; Aspergillus niger - genetics; Aspergillus niger - metabolism; Batch culture; Biomedical and Life Sciences; Biotechnology; Biotechnology industry; Carboxylic Acids - metabolism; Cell culture; Clonal deletion; Enzymes; Fermentation; Fungi; Gene deletion; Gene Editing - methods; Gene expression; Genetic engineering; Genetic modification; Genetically modified organisms; Genome editing; Industrial engineering; Insertion; Life Sciences; Malate; Malic acid; Manufacturing engineering; Metabolic Engineering - methods; Metabolic Networks and Pathways - genetics; Microbial Genetics and Genomics; Microbiology; Organic acids; Organic chemistry; Oxalates; Oxalic acid; Recombination; Recombination, Genetic; Xylan endo-1,3-b-xylosidase; Xylanase
• ISSN: 0175-7598; 1432-0614
• DOI: 10.1007/s00253-019-10054-3

The filamentous fungus Aspergillus niger is widely used in the biotechnology industry for the production of chemicals and enzymes. Engineering of this valuable organism to improve its productivity is currently hampered by the lack of efficient genetic tools. Here, a Cre- lox P-based system for gene editing in A. niger was developed and its application in construction of A. niger cell factories to produce various organic acids was explored. Two established inducible systems, the xylanase A gene promoter P xln and Tet-on system, were examined for driving cre expression and thus selection marker hyh deletion. Under inducing conditions, the efficiency of lox P site-specific recombination in the strain with cre driven by P xln is about 2%, while cre driven by Tet-on system is about 34% which was used as the platform strain for further genetic engineering. As a proof of application of this system, strains containing different copies of oxaloacetate acetylhydrolase–encoding gene ( oahA ) were constructed, and the resultant strain S428 showed as high as 3.1-fold increase in oxalic acid production. Furthermore, an efficient malate-producing strain was generated through four-step genetic manipulation ( oahA deletion, pyc , mdh3 and C4-dicarboxylate transporter gene c4t318 insertion). The resultant strain S575 achieved a titer 120.38 g/L malic acid with the flask culture, and a titer 201.24 g/L malic acid in fed-batch fermentation. These results demonstrated that this modified Cre- lox P system is a powerful tool for genetic engineering in A. niger , which has the potential to be genetically modified as a viable aciduric platform strain to produce high levels of various organic acids.