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Main Title: Comparative genomics of the aconidial Aspergillus niger strain LDM3 predicts genes associated with its high protein secretion capacity
Author(s): Sui, Yu-Fei
Ouyang, Li-Ming
Schütze, Tabea
Cheng, Shu
Meyer, Vera
Zhuang, Ying-Ping
Type: Article
Language Code: en
Abstract: Aspergillus niger is widely used as a cell factory for homologous and heterologous protein production. As previous studies reported that reduced sporulation favors protein secretion in A. niger, in this study, we conducted a comparative genomic analysis of the non-sporulating industrially exploited A. niger strain LDM3 in China and the reference protein secretion strain CBS 513.88 to predict the key genes that might define the genetic basis of LDM3’s high protein-producing potential in silico. After sequencing using a hybrid approach combining Illumina and PacBio sequencing platforms, a high-quality genome sequence of LDM3 was obtained which harbors 11,209 open reading frames (ORFs). LDM3 exhibits large chromosomal rearrangements in comparison to CBS 513.88. An alignment of the two genome sequences revealed that the majority of the 457 ORFs uniquely present in LDM3 possessed predicted functions in redox pathways, protein transport, and protein modification processes. In addition, bioinformatic analyses revealed the presence of 656 ORFs in LDM3 with non-synonymous mutations encoding for proteins related to protein translation, protein modification, protein secretion, metabolism, and energy production. We studied the impact of two of these on protein production in the established lab strain N402. Both tupA and prpA genes were selected because available literature suggested their involvement in asexual sporulation of A. niger. Our co-expression network analysis supportively predicted the role of tupA in protein secretion and the role of prpA in energy generation, respectively. By knockout experiments, we showed that the ΔtupA mutant displayed reduced sporulation (35%) accompanied by higher total protein secretion (65%) compared to its parental strain. Such an effect was, however, not observed in the ΔprpA mutant.
URI: https://depositonce.tu-berlin.de/handle/11303/11709
http://dx.doi.org/10.14279/depositonce-10601
Issue Date: 3-Feb-2020
Date Available: 24-Sep-2020
DDC Class: 570 Biowissenschaften; Biologie
Subject(s): comparative genomics
Aspergillus niger
sporulation
protein secretion
tupA
gene co-expression network
License: http://rightsstatements.org/vocab/InC/1.0/
Journal Title: Applied Microbiology and Biotechnology
Publisher: Springer
Publisher Place: Berlin ; Heidelberg [u.a.]
Volume: 104
Publisher DOI: 10.1007/s00253-020-10398-1
Page Start: 2623
Page End: 2637
EISSN: 1432-0614
ISSN: 0175-7598
Appears in Collections:FG Angewandte und Molekulare Mikrobiologie » Publications

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