Endocytosis of Nutrient Transporters in Fungi
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Delft University of Technology Endocytosis of nutrient transporters in fungi The ART of connecting signaling and trafficking Barata-Antunes, Cláudia; Alves, Rosana; Talaia, Gabriel; Casal, Margarida; Gerós, Hernâni; Mans, Robert; Paiva, Sandra DOI 10.1016/j.csbj.2021.03.013 Publication date 2021 Document Version Final published version Published in Computational and Structural Biotechnology Journal Citation (APA) Barata-Antunes, C., Alves, R., Talaia, G., Casal, M., Gerós, H., Mans, R., & Paiva, S. (2021). Endocytosis of nutrient transporters in fungi: The ART of connecting signaling and trafficking. Computational and Structural Biotechnology Journal, 19, 1713-1737. https://doi.org/10.1016/j.csbj.2021.03.013 Important note To cite this publication, please use the final published version (if applicable). Please check the document version above. 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Computational and Structural Biotechnology Journal 19 (2021) 1713–1737 journal homepage: www.elsevier.com/locate/csbj Review Endocytosis of nutrient transporters in fungi: The ART of connecting signaling and trafficking Cláudia Barata-Antunes a, Rosana Alves a, Gabriel Talaia a,b, Margarida Casal a, Hernâni Gerós a,c,d, ⇑ ⇑ Robert Mans e, , Sandra Paiva a, a Centre of Molecular and Environmental Biology, Department of Biology, University of Minho, Braga, Portugal b Department of Cell Biology, Yale University School of Medicine, New Haven, CT, United States c Centre for the Research and Technology of Agro-Environmental and Biological Sciences, University of Trás-os-Montes and Alto Douro, Vila Real, Portugal d Centre of Biological Engineering (CEB), Department of Biological Engineering, University of Minho, Braga, Portugal e Department of Biotechnology, Delft University of Technology, Delft, the Netherlands article info abstract Article history: Plasma membrane transporters play pivotal roles in the import of nutrients, including sugars, amino Received 1 November 2020 acids, nucleobases, carboxylic acids, and metal ions, that surround fungal cells. The selective removal Received in revised form 14 March 2021 of these transporters by endocytosis is one of the most important regulatory mechanisms that ensures Accepted 14 March 2021 a rapid adaptation of cells to the changing environment (e.g., nutrient fluctuations or different stresses). Available online 19 March 2021 At the heart of this mechanism lies a network of proteins that includes the arrestin-related trafficking adaptors (ARTs) which link the ubiquitin ligase Rsp5 to nutrient transporters and endocytic factors. Keywords: Transporter conformational changes, as well as dynamic interactions between its cytosolic termini/loops Fungi and with lipids of the plasma membrane, are also critical during the endocytic process. Here, we review Nutrient transporters Endocytosis the current knowledge and recent findings on the molecular mechanisms involved in nutrient transporter Arrestins endocytosis, both in the budding yeast Saccharomyces cerevisiae and in some species of the filamentous Ubiquitylation fungus Aspergillus. We elaborate on the physiological importance of tightly regulated endocytosis for cel- Endocytic signals lular fitness under dynamic conditions found in nature and highlight how further understanding and Metabolism engineering of this process is essential to maximize titer, rate and yield (TRY)-values of engineered cell Signaling pathways factories in industrial biotechnological processes. Conformational changes Ó 2021 The Authors. Published by Elsevier B.V. on behalf of Research Network of Computational and MCCs/eisosomes Structural Biotechnology. This is an open access article under the CC BY license (http://creativecommons. Structure-function Biotechnology org/licenses/by/4.0/). Cell factories Saccharomyces cerevisiae Aspergilli Abbreviations: AAs, amino acids; ACT, amino Acid/Choline Transporter; AP, adaptor protein; APC, amino acid-polyamine-organocation; Arg, arginine; Arts, arrestin-related trafficking adaptors; Asp, aspartic acid; C, carbon; C-terminus, carboxyl-terminus; Cu, copper; DUBs, deubiquitinating enzymes; EMCs, eisosome membrane compartments; ER, endoplasmic reticulum; ESCRT, endosomal sorting complex required for transport; fAATs, fungal AA transporters; Fe, iron; GAAC, general amino acid control; Glu, glutamic acid; H+, proton; IF, inward-facing; LAT, L-type Amino acid Transporter; LID, loop Interaction Domain; Lys, lysine; MCCs, membrane compartments containing the arginine permease Can1; MCPs, membrane compartments of Pma1; Met, methionine; MFS, major facilitator superfamily; Mn, manganese; MVB, multi vesicular bodies; N, + nitrogen; NAT, nucleobase Ascorbate Transporter; NCS1, nucleobase/Cation Symporter 1; NCS2, nucleobase cation symporter family 2; NH4 , ammonium; N-terminus, amino- terminus; OF, outward-facing; PEST, proline (P), glutamic acid (E), serine (S), and threonine (T); PM, plasma membrane; PVE, prevacuolar endosome; TGN, trans-Golgi network; TMSs, transmembrane segments; TORC1, target of rapamycin complex 1; Trp, tryptophan; TRY, titer, rate and yield; Tyr, tyrosine; Ub, ubiquitin; VPS, vacuolar protein sorting; W/V, weight per volume; YAT, yeast Amino acid Transporter; Zn, Zinc. ⇑ Corresponding authors at: Centre of Molecular and Environmental Biology, Department of Biology, University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal (Sandra Paiva). Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629 HZ, Delft, The Netherlands (Robert Mans). E-mail addresses: [email protected] (R. Mans), [email protected] (S. Paiva). https://doi.org/10.1016/j.csbj.2021.03.013 2001-0370/Ó 2021 The Authors. Published by Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/). Cláudia Barata-Antunes, R. Alves, G. Talaia et al. Computational and Structural Biotechnology Journal 19 (2021) 1713–1737 Contents 1. Introduction . ..................................................................................................... 1714 2. Endocytosis of sugar transporters . .................................................................................. 1719 2.1. Endocytosis of sugar transporters triggered by excess of substrate. ..................................................... 1719 2.2. Endocytosis of sugar transporters triggered by substrate depletion or starvation . .................................. 1720 2.3. Endocytosis of sugar transporters triggered by different physiological inputs . .................................. 1720 3. Endocytosis of monocarboxylate transporters . ............................................................... 1721 4. Endocytosis of amino acid transporters .................................................................................. 1722 4.1. Endocytosis of amino acid transporters triggered by nitrogen availability or excess of substrate . ............... 1724 4.2. Endocytosis of amino acid transporters triggered by substrate depletion or acute starvation . ............... 1727 4.3. Endocytosis of amino acid transporters triggered by cell stress . ..................................................... 1727 5. Endocytosis of nucleobase transporters .................................................................................. 1727 5.1. Endocytosis of Fur-like transporters . ........................................................................ 1727 5.2. Endocytosis of the high-affinity purine transporters . ..................................................... 1728 6. Endocytosis of metal micronutrient transporters. ............................................................... 1729 6.1. Endocytosis of copper transporters . ........................................................................ 1729 6.2. Endocytosis of iron transporters. ........................................................................ 1729 6.3. Endocytosis of zinc transporters. ........................................................................ 1729 6.4. Endocytosis of a broad-specificity metal ion transporter . ..................................................... 1730 7. Biotechnological relevance of nutrient transporter endocytosis ............................................................... 1730 8. Conclusions and future perspectives. .................................................................................. 1731 CRediT authorship contribution statement . ............................................................... 1731 Declaration of Competing Interest . .................................................................................. 1731 Acknowledgements . .................................................................................. 1731 References . ..................................................................................................... 1731 1. Introduction (endosome-to-PM recycling