Nødvig CS, Hoof JB, Kogle ME, Jarczynska ZD, Lehmbeck J, Klitgaard DK, Mortensen UH (2018) Efficient oligo nucleotide mediated CRISPR-Cas9 gene
editing in Aspergilli. Fungal Genet Biol 115:78–89
Oda K, Terado S, Toyoura R, Fukuda H, Kawauchi M,
Iwashita K (2016) Development of a promoter
shutoff system in Aspergillus oryzae using a
sorbitol-sensitive promoter. Biosci Biotechnol
Biochem 80:1792–1801
Ohno A, Maruyama JI, Nemoto T, Arioka M, Kitamoto
K (2011) A carrier fusion significantly induces
unfolded protein response in heterologous protein
production by Aspergillus oryzae. Appl Microbiol
Biotechnol 92:1197–1206
Okada M, Saito K, Wong CP, Li C, Wang D, Iijima M,
Taura F, Kurosaki F, Awakawa T, Abe I (2017)
Combinatorial
biosynthesis
of
(+)daurichromenic acid and its halogenated analogue. Org Lett 19:3183–3186
Osmani AH, May GS, Osmani SA (1999) The extremely
conserved pyroA gene of Aspergillus nidulans is
required for pyridoxine synthesis and is required
indirectly for resistance to photosensitizers. J Biol
Chem 274:23565–23569
Ouedraogo JP, Arentshorst M, Nikolaev I, Barends S,
Ram AFJ (2016) I-SceI enzyme mediated integration (SEMI) for fast and efficient gene targeting in
Trichoderma reesei. J Biotechnol 222:25–28
Pahirulzaman KAK, Williams K, Lazarus CM (2012) A
toolkit for heterologous expression of metabolic
pathways in Aspergillus oryzae. In: Hopwood D
(ed) Methods in enzymology, vol 517. Academic,
San Diego, pp 241–260
Paloheimo M, Haarmann T, Ma ¨kinen S, Vehmaanpera ¨ J
(2016) Production of industrial enzymes in Trichoderma reesei. In: Schmoll M, Dattenbo ¨ck C (eds)
Gene expression systems in fungi: advancements
and applications, vol 1. Springer International
Publishing, Cham, pp 23–57
Pantazopoulou A, Pinar M, Xiang X, Pen ˜alva MA (2014)
Maturation of late Golgi cisternae into
RabERAB11 exocytic post-Golgi carriers visualized in vivo. Mol Biol Cell 25:2428–2443
Perez-Pinera P, Ousterout DG, Brunger JM, Farin AM,
Glass KA, Guilak F, Crawford GE, Hartemink AJ,
Gersbach CA (2013) Synergistic and tunable
human gene activation by combinations of
synthetic transcription factors. Nat Methods
10:239–244
Peters JM, Colavin A, Shi H, Czarny TL, Larson MH,
Wong S, Hawkins JS, Lu CHS, Koo BM, Marta E,
Shiver AL, Whitehead EH, Weissman JS, Brown
ED, Qi LS, Huang KC, Gross CA (2016) A comprehensive, CRISPR-based functional analysis of
essential genes in bacteria. Cell 165:1493–1506
Petersen LM, Holm DK, Gotfredsen CH, Mortensen
UH, Larsen TO (2015) Investigation of a 6-MSA
synthase gene cluster in Aspergillus aculeatus
reveals 6-MSA-derived aculinic acid, aculins A-B
and epi-aculin A. Chembiochem 16:2200–2204
Petes T (1988) Recombination between repeated genes
in microorganisms. Annu Rev Genet 22:147–168
Pohl C, Kiel J, Driessen A, Bovenberg R, Nyga ˚rd Y
(2016) CRISPR/Cas9 based genome editing of Penicillium chrysogenum. ACS Synth Biol 5:754–764
Polli F, Meijrink B, Bovenberg RAL, Driessen AJM
(2016) New promoters for strain engineering of
Penicillium chrysogenum. Fungal Genet Biol
89:62–71
Pop C, Rouskin S, Ingolia NT, Han L, Phizicky EM,
Weissman JS, Koller D (2014) Causal signals
between codon bias, mRNA structure, and the
efficiency of translation and elongation. Mol Syst
Biol 10:1–15
Prasher DC, Eckenrode VK, Ward WW, Prendergast
FG, Cormier MJ (1992) Primary structure of the
Aequorea victoria green-fluorescent protein. Gene
111:229–233
Pretorius IS, Boeke JD (2018) Yeast 2.0-connecting the
dots in the construction of the world’s first functional synthetic eukaryotic genome. FEMS Yeast
Res 18:1–15
Punt PJ, van den Hondel CAMJJ (1992) Transformation
of filamentous fungi based on hygromycin b and
phleomycin resistance markers. In: Wu R (ed)
Methods in enzymology, vol 216. Academic, San
Diego, pp 447–457
Punt PJ, Seiboth B, Weenink XO, Van Zeijl C, Lenders
M, Konetschny C, Ram AFJ, Montijn R, Kubicek
CP, Van Den Hondel CAMJJ (2001) Identification
and characterization of a family of secretionrelated small GTPase-encoding genes from the filamentous fungus Aspergillus niger: a putative
SEC4 homologue is not essential for growth. Mol
Microbiol 41:513–525
Qi LS, Larson MH, Gilbert LA, Doudna JA, Weissman
JS, Arkin AP, Lim WA (2013) Repurposing
CRISPR as an RNA-guided platform for
sequence-specific control of gene expression. Cell
152:1173–1183
Qin LN, Cai FR, Dong XR, Huang ZB, Tao Y, Huang JZ,
Dong ZY (2012) Improved production of heterologous lipase in Trichoderma reesei by RNAi
mediated gene silencing of an endogenic highly
expressed gene. Bioresour Technol 109:116–122
Qin H, Xiao H, Zou G, Zhou Z, Zhong J (2017) CRISPRCas9 assisted gene disruption in the higher fungus
Ganoderma species. Process Biochem 56:57–61
Rahman Z, Shida Y, Furukawa T, Suzuki Y, Okada H,
Ogasawara W, Morikawa Y (2009) Evaluation and
characterization of Trichoderma reesei cellulase
and xylanase promoters. Appl Microbiol Biotechnol 82:899–908
Rantasalo A, Landowski CP, Kuivanen J, Korppoo A,
Reuter L, Koivistoinen O, Valkonen M, Penttila ¨ M,
Ja ¨ntti J, Mojzita D (2018) A universal gene expression system for fungi. Nucleic Acids Res 1:1–15
262
J. K. H. Rendsvig et al.
editing in Aspergilli. Fungal Genet Biol 115:78–89
Oda K, Terado S, Toyoura R, Fukuda H, Kawauchi M,
Iwashita K (2016) Development of a promoter
shutoff system in Aspergillus oryzae using a
sorbitol-sensitive promoter. Biosci Biotechnol
Biochem 80:1792–1801
Ohno A, Maruyama JI, Nemoto T, Arioka M, Kitamoto
K (2011) A carrier fusion significantly induces
unfolded protein response in heterologous protein
production by Aspergillus oryzae. Appl Microbiol
Biotechnol 92:1197–1206
Okada M, Saito K, Wong CP, Li C, Wang D, Iijima M,
Taura F, Kurosaki F, Awakawa T, Abe I (2017)
Combinatorial
biosynthesis
of
(+)daurichromenic acid and its halogenated analogue. Org Lett 19:3183–3186
Osmani AH, May GS, Osmani SA (1999) The extremely
conserved pyroA gene of Aspergillus nidulans is
required for pyridoxine synthesis and is required
indirectly for resistance to photosensitizers. J Biol
Chem 274:23565–23569
Ouedraogo JP, Arentshorst M, Nikolaev I, Barends S,
Ram AFJ (2016) I-SceI enzyme mediated integration (SEMI) for fast and efficient gene targeting in
Trichoderma reesei. J Biotechnol 222:25–28
Pahirulzaman KAK, Williams K, Lazarus CM (2012) A
toolkit for heterologous expression of metabolic
pathways in Aspergillus oryzae. In: Hopwood D
(ed) Methods in enzymology, vol 517. Academic,
San Diego, pp 241–260
Paloheimo M, Haarmann T, Ma ¨kinen S, Vehmaanpera ¨ J
(2016) Production of industrial enzymes in Trichoderma reesei. In: Schmoll M, Dattenbo ¨ck C (eds)
Gene expression systems in fungi: advancements
and applications, vol 1. Springer International
Publishing, Cham, pp 23–57
Pantazopoulou A, Pinar M, Xiang X, Pen ˜alva MA (2014)
Maturation of late Golgi cisternae into
RabERAB11 exocytic post-Golgi carriers visualized in vivo. Mol Biol Cell 25:2428–2443
Perez-Pinera P, Ousterout DG, Brunger JM, Farin AM,
Glass KA, Guilak F, Crawford GE, Hartemink AJ,
Gersbach CA (2013) Synergistic and tunable
human gene activation by combinations of
synthetic transcription factors. Nat Methods
10:239–244
Peters JM, Colavin A, Shi H, Czarny TL, Larson MH,
Wong S, Hawkins JS, Lu CHS, Koo BM, Marta E,
Shiver AL, Whitehead EH, Weissman JS, Brown
ED, Qi LS, Huang KC, Gross CA (2016) A comprehensive, CRISPR-based functional analysis of
essential genes in bacteria. Cell 165:1493–1506
Petersen LM, Holm DK, Gotfredsen CH, Mortensen
UH, Larsen TO (2015) Investigation of a 6-MSA
synthase gene cluster in Aspergillus aculeatus
reveals 6-MSA-derived aculinic acid, aculins A-B
and epi-aculin A. Chembiochem 16:2200–2204
Petes T (1988) Recombination between repeated genes
in microorganisms. Annu Rev Genet 22:147–168
Pohl C, Kiel J, Driessen A, Bovenberg R, Nyga ˚rd Y
(2016) CRISPR/Cas9 based genome editing of Penicillium chrysogenum. ACS Synth Biol 5:754–764
Polli F, Meijrink B, Bovenberg RAL, Driessen AJM
(2016) New promoters for strain engineering of
Penicillium chrysogenum. Fungal Genet Biol
89:62–71
Pop C, Rouskin S, Ingolia NT, Han L, Phizicky EM,
Weissman JS, Koller D (2014) Causal signals
between codon bias, mRNA structure, and the
efficiency of translation and elongation. Mol Syst
Biol 10:1–15
Prasher DC, Eckenrode VK, Ward WW, Prendergast
FG, Cormier MJ (1992) Primary structure of the
Aequorea victoria green-fluorescent protein. Gene
111:229–233
Pretorius IS, Boeke JD (2018) Yeast 2.0-connecting the
dots in the construction of the world’s first functional synthetic eukaryotic genome. FEMS Yeast
Res 18:1–15
Punt PJ, van den Hondel CAMJJ (1992) Transformation
of filamentous fungi based on hygromycin b and
phleomycin resistance markers. In: Wu R (ed)
Methods in enzymology, vol 216. Academic, San
Diego, pp 447–457
Punt PJ, Seiboth B, Weenink XO, Van Zeijl C, Lenders
M, Konetschny C, Ram AFJ, Montijn R, Kubicek
CP, Van Den Hondel CAMJJ (2001) Identification
and characterization of a family of secretionrelated small GTPase-encoding genes from the filamentous fungus Aspergillus niger: a putative
SEC4 homologue is not essential for growth. Mol
Microbiol 41:513–525
Qi LS, Larson MH, Gilbert LA, Doudna JA, Weissman
JS, Arkin AP, Lim WA (2013) Repurposing
CRISPR as an RNA-guided platform for
sequence-specific control of gene expression. Cell
152:1173–1183
Qin LN, Cai FR, Dong XR, Huang ZB, Tao Y, Huang JZ,
Dong ZY (2012) Improved production of heterologous lipase in Trichoderma reesei by RNAi
mediated gene silencing of an endogenic highly
expressed gene. Bioresour Technol 109:116–122
Qin H, Xiao H, Zou G, Zhou Z, Zhong J (2017) CRISPRCas9 assisted gene disruption in the higher fungus
Ganoderma species. Process Biochem 56:57–61
Rahman Z, Shida Y, Furukawa T, Suzuki Y, Okada H,
Ogasawara W, Morikawa Y (2009) Evaluation and
characterization of Trichoderma reesei cellulase
and xylanase promoters. Appl Microbiol Biotechnol 82:899–908
Rantasalo A, Landowski CP, Kuivanen J, Korppoo A,
Reuter L, Koivistoinen O, Valkonen M, Penttila ¨ M,
Ja ¨ntti J, Mojzita D (2018) A universal gene expression system for fungi. Nucleic Acids Res 1:1–15
262
J. K. H. Rendsvig et al.