Comparative genomics of the aconidial Aspergillus niger strain LDM3 predicts genes associated with its high protein secretion capacity

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dc.contributor.authorSui, Yu-Fei
dc.contributor.authorOuyang, Li-Ming
dc.contributor.authorSchütze, Tabea
dc.contributor.authorCheng, Shu
dc.contributor.authorMeyer, Vera
dc.contributor.authorZhuang, Ying-Ping
dc.date.accessioned2020-09-24T10:09:40Z
dc.date.available2020-09-24T10:09:40Z
dc.date.issued2020-02-03
dc.description.abstractAspergillus 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.en
dc.identifier.eissn1432-0614
dc.identifier.issn0175-7598
dc.identifier.urihttps://depositonce.tu-berlin.de/handle/11303/11709
dc.identifier.urihttp://dx.doi.org/10.14279/depositonce-10601
dc.language.isoenen
dc.rights.urihttp://rightsstatements.org/vocab/InC/1.0/en
dc.subject.ddc570 Biowissenschaften; Biologiede
dc.subject.othercomparative genomicsen
dc.subject.otherAspergillus nigeren
dc.subject.othersporulationen
dc.subject.otherprotein secretionen
dc.subject.othertupAen
dc.subject.othergene co-expression networken
dc.titleComparative genomics of the aconidial Aspergillus niger strain LDM3 predicts genes associated with its high protein secretion capacityen
dc.typeArticleen
dc.type.versionacceptedVersionen
dcterms.bibliographicCitation.doi10.1007/s00253-020-10398-1en
dcterms.bibliographicCitation.journaltitleApplied Microbiology and Biotechnologyen
dcterms.bibliographicCitation.originalpublishernameSpringeren
dcterms.bibliographicCitation.originalpublisherplaceBerlin ; Heidelberg [u.a.]en
dcterms.bibliographicCitation.pageend2637en
dcterms.bibliographicCitation.pagestart2623en
dcterms.bibliographicCitation.volume104en
tub.accessrights.dnbdomain*
tub.affiliationFak. 3 Prozesswissenschaften::Inst. Biotechnologie::FG Angewandte und Molekulare Mikrobiologiede
tub.affiliation.facultyFak. 3 Prozesswissenschaftende
tub.affiliation.groupFG Angewandte und Molekulare Mikrobiologiede
tub.affiliation.instituteInst. Biotechnologiede
tub.publisher.universityorinstitutionTechnische Universität Berlinen

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