tion of the glucoamylase gene in Aspergillus niger.
Mol Microbiol 53:1731–1742
Amara JF, Lederkremer G, Lodish HF (1989) Intracellular degradation of unassembled asialoglycoprotein
receptor subunits: a pre-Golgi, nonlysosomal
endoproteolytic cleavage. J Cell Biol 109:3315–3324
Aramayo R, Selker EU (2013) Neurospora crassa, a
model system for epigenetics research. Cold
Spring Harb Perspect Biol 5:a017921
Arvas M, Pakula T, Lanthaler K, Saloheimo M, Valkonen M, Suortti T, Robson G, Penttila M (2006)
Common features and interesting differences in
transcriptional responses to secretion stress in
the fungi Trichoderma reesei and Saccharomyces
cerevisiae. BMC Genomics 7:32
Avci D, Fuchs S, Schrul B, Fukumori A, Breker M,
Frumkin I, Chen CY, Biniossek ML, Kremmer E,
Schilling O, Steiner H, Schuldiner M, Lemberg MK
(2014) The yeast ER-intramembrane protease Ypf1
refines nutrient sensing by regulating transporter
abundance. Mol Cell 56:630–640
Bahn YS, Jung KW (2013) Stress signaling pathways for
the pathogenicity of Cryptococcus. Eukaryot Cell
12:1564–1577
Bat-Ochir C, Kwak JY, Koh SK, Jeon MH, Chung D, Lee
YW, Chae SK (2016) The signal peptide peptidase
SppA is involved in sterol regulatory elementbinding protein cleavage and hypoxia adaptation
in Aspergillus nidulans. Mol Microbiol 100:635–655
Beauvais A, Bruneau JM, Mol PC, Buitrago MJ, Legrand
R, Latge JP (2001) Glucan synthase complex of
Aspergillus fumigatus. J Bacteriol 183:2273–2279
Benz JP, Chau BH, Zheng D, Bauer S, Glass NL, Somerville CR (2014) A comparative systems analysis of
polysaccharide-elicited responses in Neurospora
crassa reveals carbon source-specific cellular
adaptations. Mol Microbiol 91:275–299
Bernales S, McDonald KL, Walter P (2006) Autophagy
counterbalances endoplasmic reticulum expansion during the unfolded protein response. PLoS
Biol 4:e423
Bhamidipati A, Denic V, Quan EM, Weissman JS (2005)
Exploration of the topological requirements of
ERAD identifies Yos9p as a lectin sensor of misfolded glycoproteins in the ER lumen. Mol Cell
19:741–751
Bien CM, Espenshade PJ (2010) Sterol regulatory element binding proteins in fungi: hypoxic transcription factors linked to pathogenesis. Eukaryot Cell
9:352–359
Bonilla M, Cunningham KW (2003) Mitogen-activated
protein kinase stimulation of Ca(2+) signaling is
required for survival of endoplasmic reticulum
stress in yeast. Mol Biol Cell 14:4296–4305
Bonilla M, Nastase KK, Cunningham KW (2002) Essential role of calcineurin in response to endoplasmic
reticulum stress. EMBO J 21:2343–2353
Brefort T, Doehlemann G, Mendoza-Mendoza A, Reissmann S, Djamei A, Kahmann R (2009) Ustilago
maydis as a pathogen. Annu Rev Phytopathol
47:423–445
Burggraaf AM, Ram AF (2016) Autophagy is dispensable to overcome ER stress in the filamentous
fungus Aspergillus niger. Microbiology 5:647–658
Buschhorn BA, Kostova Z, Medicherla B, Wolf DH
(2004) A genome-wide screen identifies Yos9p as
essential for ER-associated degradation of glycoproteins. FEBS Lett 577:422–426
Byrd AE, Brewer JW (2012) Intricately regulated: a
cellular toolbox for fine-tuning XBP1 expression
and activity. Cell 1:738–753
Cairns TC, Nai C, Meyer V (2018) How a fungus shapes
biotechnology: 100 years of Aspergillus niger
research. Fungal Biol Biotechnol 5:13
Carvalho ND, Arentshorst M, Kooistra R, Stam H, Sagt
CM, van den Hondel CA, Ram AF (2011) Effects of
a defective ERAD pathway on growth and heterologous protein production in Aspergillus niger.
Appl Microbiol Biotechnol 89:357–373
Carvalho P, Goder V, Rapoport TA (2006) Distinct
ubiquitin-ligase complexes define convergent
pathways for the degradation of ER proteins. Cell
126:361–373
Carvalho ND, Jorgensen TR, Arentshorst M, Nitsche
BM, van den Hondel CA, Archer DB, Ram AF
(2012) Genome-wide expression analysis upon
constitutive activation of the HacA bZIP transcription factor in Aspergillus niger reveals a coordinated cellular response to counteract ER stress.
BMC Genomics 13:350
Chaillot J, Tebbji F, Remmal A, Boone C, Brown GW,
Bellaoui M, Sellam A (2015) The monoterpene
carvacrol generates endoplasmic reticulum stress
in the pathogenic fungus Candida albicans. Antimicrob Agents Chemother 59:4584–4592
Chawla A, Chakrabarti S, Ghosh G, Niwa M (2011)
Attenuation of yeast UPR is essential for survival
and is mediated by IRE1 kinase. J Cell Biol
193:41–50
Chen C, Bonifacino JS, Yuan LC, Klausner RD (1988)
Selective degradation of T cell antigen receptor
chains retained in a pre-Golgi compartment. J
Cell Biol 107:2149–2161
Chen Y, Feldman DE, Deng C, Brown JA, De Giacomo
AF, Gaw AF, Shi G, Le QT, Brown JM, Koong AC
(2005) Identification of mitogen-activated protein
kinase signaling pathways that confer resistance to
endoplasmic reticulum stress in Saccharomyces
cerevisiae. Mol Cancer Res 3:669–677
Chen X, Iliopoulos D, Zhang Q, Tang Q, Greenblatt MB,
Hatziapostolou M, Lim E, Tam WL, Ni M, Chen Y,
Mai J, Shen H, Hu DZ, Adoro S, Hu B, Song M, Tan
C, Landis MD, Ferrari M, Shin SJ, Brown M, Chang
JC, Liu XS, Glimcher LH (2014) XBP1 promotes
triple-negative breast cancer by controlling the
HIF1alpha pathway. Nature 508:103–107
3 Genetics of the Unfolded Protein Response in Fungi
69
Mol Microbiol 53:1731–1742
Amara JF, Lederkremer G, Lodish HF (1989) Intracellular degradation of unassembled asialoglycoprotein
receptor subunits: a pre-Golgi, nonlysosomal
endoproteolytic cleavage. J Cell Biol 109:3315–3324
Aramayo R, Selker EU (2013) Neurospora crassa, a
model system for epigenetics research. Cold
Spring Harb Perspect Biol 5:a017921
Arvas M, Pakula T, Lanthaler K, Saloheimo M, Valkonen M, Suortti T, Robson G, Penttila M (2006)
Common features and interesting differences in
transcriptional responses to secretion stress in
the fungi Trichoderma reesei and Saccharomyces
cerevisiae. BMC Genomics 7:32
Avci D, Fuchs S, Schrul B, Fukumori A, Breker M,
Frumkin I, Chen CY, Biniossek ML, Kremmer E,
Schilling O, Steiner H, Schuldiner M, Lemberg MK
(2014) The yeast ER-intramembrane protease Ypf1
refines nutrient sensing by regulating transporter
abundance. Mol Cell 56:630–640
Bahn YS, Jung KW (2013) Stress signaling pathways for
the pathogenicity of Cryptococcus. Eukaryot Cell
12:1564–1577
Bat-Ochir C, Kwak JY, Koh SK, Jeon MH, Chung D, Lee
YW, Chae SK (2016) The signal peptide peptidase
SppA is involved in sterol regulatory elementbinding protein cleavage and hypoxia adaptation
in Aspergillus nidulans. Mol Microbiol 100:635–655
Beauvais A, Bruneau JM, Mol PC, Buitrago MJ, Legrand
R, Latge JP (2001) Glucan synthase complex of
Aspergillus fumigatus. J Bacteriol 183:2273–2279
Benz JP, Chau BH, Zheng D, Bauer S, Glass NL, Somerville CR (2014) A comparative systems analysis of
polysaccharide-elicited responses in Neurospora
crassa reveals carbon source-specific cellular
adaptations. Mol Microbiol 91:275–299
Bernales S, McDonald KL, Walter P (2006) Autophagy
counterbalances endoplasmic reticulum expansion during the unfolded protein response. PLoS
Biol 4:e423
Bhamidipati A, Denic V, Quan EM, Weissman JS (2005)
Exploration of the topological requirements of
ERAD identifies Yos9p as a lectin sensor of misfolded glycoproteins in the ER lumen. Mol Cell
19:741–751
Bien CM, Espenshade PJ (2010) Sterol regulatory element binding proteins in fungi: hypoxic transcription factors linked to pathogenesis. Eukaryot Cell
9:352–359
Bonilla M, Cunningham KW (2003) Mitogen-activated
protein kinase stimulation of Ca(2+) signaling is
required for survival of endoplasmic reticulum
stress in yeast. Mol Biol Cell 14:4296–4305
Bonilla M, Nastase KK, Cunningham KW (2002) Essential role of calcineurin in response to endoplasmic
reticulum stress. EMBO J 21:2343–2353
Brefort T, Doehlemann G, Mendoza-Mendoza A, Reissmann S, Djamei A, Kahmann R (2009) Ustilago
maydis as a pathogen. Annu Rev Phytopathol
47:423–445
Burggraaf AM, Ram AF (2016) Autophagy is dispensable to overcome ER stress in the filamentous
fungus Aspergillus niger. Microbiology 5:647–658
Buschhorn BA, Kostova Z, Medicherla B, Wolf DH
(2004) A genome-wide screen identifies Yos9p as
essential for ER-associated degradation of glycoproteins. FEBS Lett 577:422–426
Byrd AE, Brewer JW (2012) Intricately regulated: a
cellular toolbox for fine-tuning XBP1 expression
and activity. Cell 1:738–753
Cairns TC, Nai C, Meyer V (2018) How a fungus shapes
biotechnology: 100 years of Aspergillus niger
research. Fungal Biol Biotechnol 5:13
Carvalho ND, Arentshorst M, Kooistra R, Stam H, Sagt
CM, van den Hondel CA, Ram AF (2011) Effects of
a defective ERAD pathway on growth and heterologous protein production in Aspergillus niger.
Appl Microbiol Biotechnol 89:357–373
Carvalho P, Goder V, Rapoport TA (2006) Distinct
ubiquitin-ligase complexes define convergent
pathways for the degradation of ER proteins. Cell
126:361–373
Carvalho ND, Jorgensen TR, Arentshorst M, Nitsche
BM, van den Hondel CA, Archer DB, Ram AF
(2012) Genome-wide expression analysis upon
constitutive activation of the HacA bZIP transcription factor in Aspergillus niger reveals a coordinated cellular response to counteract ER stress.
BMC Genomics 13:350
Chaillot J, Tebbji F, Remmal A, Boone C, Brown GW,
Bellaoui M, Sellam A (2015) The monoterpene
carvacrol generates endoplasmic reticulum stress
in the pathogenic fungus Candida albicans. Antimicrob Agents Chemother 59:4584–4592
Chawla A, Chakrabarti S, Ghosh G, Niwa M (2011)
Attenuation of yeast UPR is essential for survival
and is mediated by IRE1 kinase. J Cell Biol
193:41–50
Chen C, Bonifacino JS, Yuan LC, Klausner RD (1988)
Selective degradation of T cell antigen receptor
chains retained in a pre-Golgi compartment. J
Cell Biol 107:2149–2161
Chen Y, Feldman DE, Deng C, Brown JA, De Giacomo
AF, Gaw AF, Shi G, Le QT, Brown JM, Koong AC
(2005) Identification of mitogen-activated protein
kinase signaling pathways that confer resistance to
endoplasmic reticulum stress in Saccharomyces
cerevisiae. Mol Cancer Res 3:669–677
Chen X, Iliopoulos D, Zhang Q, Tang Q, Greenblatt MB,
Hatziapostolou M, Lim E, Tam WL, Ni M, Chen Y,
Mai J, Shen H, Hu DZ, Adoro S, Hu B, Song M, Tan
C, Landis MD, Ferrari M, Shin SJ, Brown M, Chang
JC, Liu XS, Glimcher LH (2014) XBP1 promotes
triple-negative breast cancer by controlling the
HIF1alpha pathway. Nature 508:103–107
3 Genetics of the Unfolded Protein Response in Fungi
69