A missense allele of PEX5 is responsible for the defective import of PTS2 cargo proteins into peroxisomes.


Journal

Human genetics
ISSN: 1432-1203
Titre abrégé: Hum Genet
Pays: Germany
ID NLM: 7613873

Informations de publication

Date de publication:
Apr 2021
Historique:
received: 05 05 2020
accepted: 07 11 2020
pubmed: 4 1 2021
medline: 31 3 2021
entrez: 3 1 2021
Statut: ppublish

Résumé

Peroxisomes, single-membrane intracellular organelles, play an important role in various metabolic pathways. The translocation of proteins from the cytosol to peroxisomes depends on peroxisome import receptor proteins and defects in peroxisome transport result in a wide spectrum of peroxisomal disorders. Here, we report a large consanguineous family with autosomal recessive congenital cataracts and developmental defects. Genome-wide linkage analysis localized the critical interval to chromosome 12p with a maximum two-point LOD score of 4.2 (θ = 0). Next-generation exome sequencing identified a novel homozygous missense variant (c.653 T > C; p.F218S) in peroxisomal biogenesis factor 5 (PEX5), a peroxisome import receptor protein. This missense mutation was confirmed by bidirectional Sanger sequencing. It segregated with the disease phenotype in the family and was absent in ethnically matched control chromosomes. The lens-specific knockout mice of Pex5 recapitulated the cataractous phenotype. In vitro import assays revealed a normal capacity of the mutant PEX5 to enter the peroxisomal Docking/Translocation Module (DTM) in the presence of peroxisome targeting signal 1 (PTS1) cargo protein, be monoubiquitinated and exported back into the cytosol. Importantly, the mutant PEX5 protein was unable to form a stable trimeric complex with peroxisomal biogenesis factor 7 (PEX7) and a peroxisome targeting signal 2 (PTS2) cargo protein and, therefore, failed to promote the import of PTS2 cargo proteins into peroxisomes. In conclusion, we report a novel missense mutation in PEX5 responsible for the defective import of PTS2 cargo proteins into peroxisomes resulting in congenital cataracts and developmental defects.

Identifiants

pubmed: 33389129
doi: 10.1007/s00439-020-02238-z
pii: 10.1007/s00439-020-02238-z
doi:

Substances chimiques

ABCD3 protein, human 0
ATP-Binding Cassette Transporters 0
PEX5 protein, human 0
Peroxisomal Targeting Signals 0
Peroxisome-Targeting Signal 1 Receptor 0
SQSTM1 protein, human 0
Sequestosome-1 Protein 0

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

649-666

Subventions

Organisme : NEI NIH HHS
ID : R01EY022714
Pays : United States
Organisme : NEI NIH HHS
ID : R01EY022714
Pays : United States

Références

Alencastre IS, Rodrigues TA, Grou CP, Fransen M, Sa-Miranda C, Azevedo JE (2009) Mapping the cargo protein membrane translocation step into the PEX5 cycling pathway. J Biol Chem 284:27243–27251
pubmed: 19632994 pmcid: 2785652
Baes M, Dewerchin M, Janssen A, Collen D, Carmeliet P (2002) Generation of Pex5-loxP mice allowing the conditional elimination of peroxisomes. Genesis 32:177–178
pubmed: 11857813
Baroy T, Koster J, Stromme P, Ebberink MS, Misceo D, Ferdinandusse S, Holmgren A, Hughes T, Merckoll E, Westvik J, Woldseth B, Walter J, Wood N, Tvedt B, Stadskleiv K, Wanders RJ, Waterham HR, Frengen E (2015) A novel type of rhizomelic chondrodysplasia punctata, RCDP5, is caused by loss of the PEX5 long isoform. Hum Mol Genet 24:5845–5854
pubmed: 26220973
Braverman NE, Moser AB (2012) Functions of plasmalogen lipids in health and disease. Biochim Biophys Acta 1822:1442–1452
pubmed: 22627108
Braverman N, Steel G, Obie C, Moser A, Moser H, Gould SJ, Valle D (1997) Human PEX7 encodes the peroxisomal PTS2 receptor and is responsible for rhizomelic chondrodysplasia punctata. Nat Genet 15:369–376
pubmed: 9090381
Braverman N, Dodt G, Gould SJ, Valle D (1998) An isoform of pex5p, the human PTS1 receptor, is required for the import of PTS2 proteins into peroxisomes. Hum Mol Genet 7:1195–1205
pubmed: 9668159
Braverman N, Chen L, Lin P, Obie C, Steel G, Douglas P, Chakraborty PK, Clarke JT, Boneh A, Moser A, Moser H, Valle D (2002) Mutation analysis of PEX7 in 60 probands with rhizomelic chondrodysplasia punctata and functional correlations of genotype with phenotype. Hum Mutat 20:284–297
pubmed: 12325024
Brocard C, Hartig A (2006) Peroxisome targeting signal 1: is it really a simple tripeptide? Biochim Biophys Acta 1763:1565–1573
pubmed: 17007944
Brosche T, Platt D (1998) The biological significance of plasmalogens in defense against oxidative damage. Exp Gerontol 33:363–369
pubmed: 9762517
Buchert R, Tawamie H, Smith C, Uebe S, Innes AM, Al HB, Ekici AB, Sticht H, Schwarze B, Lamont RE, Parboosingh JS, Bernier FP, Abou JR (2014) A peroxisomal disorder of severe intellectual disability, epilepsy, and cataracts due to fatty acyl-CoA reductase 1 deficiency. Am J Hum Genet 95:602–610
pubmed: 25439727 pmcid: 4225589
Carvalho AF, Grou CP, Pinto MP, Alencastre IS, Costa-Rodrigues J, Fransen M, Sa-Miranda C, Azevedo JE (2007) Functional characterization of two missense mutations in Pex5p - C11S and N526K. Biochim Biophys Acta 1773:1141–1148
pubmed: 17532062
Carvalho AF, Pinto MP, Grou CP, Alencastre IS, Fransen M, Sa-Miranda C, Azevedo JE (2007) Ubiquitination of mammalian Pex5p, the peroxisomal import receptor. J Biol Chem 282:31267–31272
pubmed: 17726030
Distel B, Erdmann R, Gould SJ, Blobel G, Crane DI, Cregg JM, Dodt G, Fujiki Y, Goodman JM, Just WW, Kiel JA, Kunau WH, Lazarow PB, Mannaerts GP, Moser HW, Osumi T, Rachubinski RA, Roscher A, Subramani S, Tabak HF, Tsukamoto T, Valle D, van der Klei I, Van Veldhoven PP, Veenhuis M (1996) A unified nomenclature for peroxisome biogenesis factors. J Cell Biol 135:1–3
pubmed: 8858157
Dodt G, Braverman N, Wong C, Moser A, Moser HW, Watkins P, Valle D, Gould SJ (1995) Mutations in the PTS1 receptor gene, PXR1, define complementation group 2 of the peroxisome biogenesis disorders. Nat Genet 9:115–125
pubmed: 7719337
Ebberink MS, Mooyer PA, Koster J, Dekker CJ, Eyskens FJ, Dionisi-Vici C, Clayton PT, Barth PG, Wanders RJ, Waterham HR (2009) Genotype-phenotype correlation in PEX5-deficient peroxisome biogenesis defective cell lines. Hum Mutat 30:93–98
pubmed: 18712838
Francisco T, Rodrigues TA, Freitas MO, Grou CP, Carvalho AF, Sa-Miranda C, Pinto MP, Azevedo JE (2013) A cargo-centered perspective on the PEX5 receptor-mediated peroxisomal protein import pathway. J Biol Chem 288:29151–29159
pubmed: 23963456 pmcid: 3790014
Francisco T, Rodrigues TA, Dias AF, Barros-Barbosa A, Bicho D, Azevedo JE (2017) Protein transport into peroxisomes: knowns and unknowns. BioEssays 39:1700047
Gatto GJ Jr, Geisbrecht BV, Gould SJ, Berg JM (2000) Peroxisomal targeting signal-1 recognition by the TPR domains of human PEX5. Nat Struct Biol 7:1091–1095
pubmed: 11101887
Gorgas K, Teigler A, Komljenovic D, Just WW (2006) The ether lipid-deficient mouse: tracking down plasmalogen functions. Biochim Biophys Acta 1763:1511–1526
pubmed: 17027098
Gouveia AM, Guimaraes CP, Oliveira ME, Sa-Miranda C, Azevedo JE (2003) Insertion of Pex5p into the peroxisomal membrane is cargo protein-dependent. J Biol Chem 278:4389–4392
pubmed: 12502712
Grou CP, Carvalho AF, Pinto MP, Huybrechts SJ, Sa-Miranda C, Fransen M, Azevedo JE (2009) Properties of the ubiquitin-pex5p thiol ester conjugate. J Biol Chem 284:10504–10513
pubmed: 19208625 pmcid: 2667737
Grou CP, Francisco T, Rodrigues TA, Freitas MO, Pinto MP, Carvalho AF, Domingues P, Wood SA, Rodriguez-Borges JE, Sa-Miranda C, Fransen M, Azevedo JE (2012) Identification of ubiquitin-specific protease 9X (USP9X) as a deubiquitinase acting on ubiquitin-peroxin 5 (PEX5) thioester conjugate. J Biol Chem 287:12815–12827
pubmed: 22371489 pmcid: 3339989
Hoang TV, Kumar PK, Sutharzan S, Tsonis PA, Liang C, Robinson ML (2014) Comparative transcriptome analysis of epithelial and fiber cells in newborn mouse lenses with RNA sequencing. Mol Vis 20:1491–1517
pubmed: 25489224 pmcid: 4225139
Kakrana A, Yang A, Anand D, Djordjevic D, Ramachandruni D, Singh A, Huang H, Ho JWK, Lachke SA (2018) iSyTE 2.0: a database for expression-based gene discovery in the eye. Nucleic Acids Res 46:D875–D885
pubmed: 29036527
Khan SY, Hackett SF, Lee MC, Pourmand N, Talbot CC Jr, Riazuddin SA (2015) Transcriptome profiling of developing murine lens through RNA sequencing. Invest Ophthalmol Vis Sci 56:4919–4926
pubmed: 26225632 pmcid: 4525677
Khan SY, Vasanth S, Kabir F, Gottsch JD, Khan AO, Chaerkady R, Lee MC, Leitch CC, Ma Z, Laux J, Villasmil R, Khan SN, Riazuddin S, Akram J, Cole RN, Talbot CC, Pourmand N, Zaghloul NA, Hejtmancik JF, Riazuddin SA (2016) FOXE3 contributes to peters anomaly through transcriptional regulation of an autophagy-associated protein termed DNAJB1. Nat Commun 7:10953
pubmed: 27218149 pmcid: 4820811
Khan SY, Ali M, Kabir F, Renuse S, Na CH, Talbot CC Jr, Hackett SF, Riazuddin SA (2018) Proteome profiling of developing murine lens through mass spectrometry. Invest Ophthalmol Vis Sci 59:100–107
pubmed: 29332127 pmcid: 5769801
Kunze M (2020) The type-2 peroxisomal targeting signal. Biochim Biophys Acta Mol Cell Res 1867:118609
pubmed: 31751594
Kurochkin IV, Mizuno Y, Konagaya A, Sakaki Y, Schonbach C, Okazaki Y (2007) Novel peroxisomal protease Tysnd1 processes PTS1- and PTS2-containing enzymes involved in β-oxidation of fatty acids. EMBO J 26:835–845
pubmed: 17255948 pmcid: 1794383
Lathrop GM, Lalouel JM (1984) Easy calculations of lod scores and genetic risks on small computers. Am J Hum Genet 36:460–465
pubmed: 6585139 pmcid: 1684427
Luoma AM, Kuo F, Cakici O, Crowther MN, Denninger AR, Avila RL, Brites P, Kirschner DA (2015) Plasmalogen phospholipids protect internodal myelin from oxidative damage. Free Radic Biol Med 84:296–310
pubmed: 25801291
Marsili S, Salganik RI, Albright CD, Freel CD, Johnsen S, Peiffer RL, Costello MJ (2004) Cataract formation in a strain of rats selected for high oxidative stress. Exp Eye Res 79:595–612
pubmed: 15500819
Miyata N, Fujiki Y (2005) Shuttling mechanism of peroxisome targeting signal type 1 receptor Pex5: ATP-independent import and ATP-dependent export. Mol Cell Biol 25:10822–10832
pubmed: 16314507 pmcid: 1316942
Motley AM, Hettema EH, Hogenhout EM, Brites P, ten Asbroek AL, Wijburg FA, Baas F, Heijmans HS, Tabak HF, Wanders RJ, Distel B (1997) Rhizomelic chondrodysplasia punctata is a peroxisomal protein targeting disease caused by a non-functional PTS2 receptor. Nat Genet 15:377–380
pubmed: 9090382
Neuhaus A, Kooshapur H, Wolf J, Meyer NH, Madl T, Saidowsky J, Hambruch E, Lazam A, Jung M, Sattler M, Schliebs W, Erdmann R (2014) A novel Pex14 protein-interacting site of human Pex5 is critical for matrix protein import into peroxisomes. J Biol Chem 289:437–448
pubmed: 24235149
Otera H, Okumoto K, Tateishi K, Ikoma Y, Matsuda E, Nishimura M, Tsukamoto T, Osumi T, Ohashi K, Higuchi O, Fujiki Y (1998) Peroxisome targeting signal type 1 (PTS1) receptor is involved in import of both PTS1 and PTS2: studies with PEX5-defective CHO cell mutants. Mol Cell Biol 18:388–399
pubmed: 9418886 pmcid: 121509
Pan D, Nakatsu T, Kato H (2013) Crystal structure of peroxisomal targeting signal-2 bound to its receptor complex Pex7p-Pex21p. Nat Struct Mol Biol 20:987–993
pubmed: 23812376
Pedrosa AG, Francisco T, Bicho D, Dias AF, Barros-Barbosa A, Hagmann V, Dodt G, Rodrigues TA, Azevedo JE (2018) Peroxisomal monoubiquitinated PEX5 interacts with the AAA ATPases PEX1 and PEX6 and is unfolded during its dislocation into the cytosol. J Biol Chem 293:11553–11563
pubmed: 29884772 pmcid: 6065197
Platta HW, Grunau S, Rosenkranz K, Girzalsky W, Erdmann R (2005) Functional role of the AAA peroxins in dislocation of the cycling PTS1 receptor back to the cytosol. Nat Cell Biol 7:817–822
pubmed: 16007078
Pronicka E, Piekutowska-Abramczuk D, Ciara E, Trubicka J, Rokicki D, Karkucinska-Wieckowska A, Pajdowska M, Jurkiewicz E, Halat P, Kosinska J, Pollak A, Rydzanicz M, Stawinski P, Pronicki M, Krajewska-Walasek M, Ploski R (2016) New perspective in diagnostics of mitochondrial disorders: two years’ experience with whole-exome sequencing at a national paediatric centre. J Transl Med 14:174
pubmed: 27290639 pmcid: 4903158
Purdue PE, Zhang JW, Skoneczny M, Lazarow PB (1997) Rhizomelic chondrodysplasia punctata is caused by deficiency of human PEX7, a homologue of the yeast PTS2 receptor. Nat Genet 15:381–384
pubmed: 9090383
Rodrigues TA, Alencastre IS, Francisco T, Brites P, Fransen M, Grou CP, Azevedo JE (2014) A PEX7-centered perspective on the peroxisomal targeting signal type 2-mediated protein import pathway. Mol Cell Biol 34:2917–2928
pubmed: 24865970 pmcid: 4135580
Rodrigues TA, Grou CP, Azevedo JE (2015) Revisiting the intraperoxisomal pathway of mammalian PEX7. Sci Rep 5:11806
pubmed: 26138649 pmcid: 4490337
Rodrigues TA, Francisco T, Dias AF, Pedrosa AG, Grou CP, Azevedo JE (2016) A cell-free organelle-based in vitro system for studying the peroxisomal protein import machinery. Nat Protoc 11:2454–2469
pubmed: 27831570
Schaffer AA, Gupta SK, Shriram K, Cottingham RW (1994) Avoiding recomputation in genetic linkage analysis. Hum Hered 44:225–237
pubmed: 8056435
Shiels A, Hejtmancik JF (2015) Molecular genetics of cataract. Prog Mol Biol Transl Sci 134:203–218
pubmed: 26310156 pmcid: 5656277
Shiels A, Hejtmancik JF (2017) Mutations and mechanisms in congenital and age-related cataracts. Exp Eye Res 156:95–102
pubmed: 27334249
Shiels A, Hejtmancik JF (2019) Biology of inherited cataracts and opportunities for treatment. Annu Rev Vis Sci 5:123–149
pubmed: 31525139 pmcid: 6791712
Shimozawa N, Zhang Z, Suzuki Y, Imamura A, Tsukamoto T, Osumi T, Fujiki Y, Orii T, Barth PG, Wanders RJ, Kondo N (1999) Functional heterogeneity of C-terminal peroxisome targeting signal 1 in PEX5-defective patients. Biochem Biophys Res Commun 262:504–508
pubmed: 10462504
Srivastava SK, Ansari NH, Bhatnagar A (1990) Sugar induced cataractogenesis: a paradigm of oxidative tissue pathology? Lens Eye Toxic Res 7:161–171
pubmed: 2275929
Sullivan DT, Carroll WT, Kanik-Ennulat CL, Hitti YS, Lovett JA, Von KL (1985) Glyceraldehyde-3-phosphate dehydrogenase from Drosophila melanogaster. Identification of two isozymic forms encoded by separate genes. J Biol Chem 260:4345–4350
pubmed: 2984203
Thai TP, Rodemer C, Worsch J, Hunziker A, Gorgas K, Just WW (1999) Synthesis of plasmalogens in eye lens epithelial cells. FEBS Lett 456:263–268
pubmed: 10456321
van den Bosch H, Schutgens RB, Wanders RJ, Tager JM (1992) Biochemistry of peroxisomes. Annu Rev Biochem 61:157–197
pubmed: 1353950
Vang S, Corydon TJ, Borglum AD, Scott MD, Frydman J, Mogensen J, Gregersen N, Bross P (2005) Actin mutations in hypertrophic and dilated cardiomyopathy cause inefficient protein folding and perturbed filament formation. FEBS J 272:2037–2049
pubmed: 15819894
Wanders RJ (2014) Metabolic functions of peroxisomes in health and disease. Biochimie 98:36–44
pubmed: 24012550
Wanders RJ, Waterham HR (2006) Biochemistry of mammalian peroxisomes revisited. Annu Rev Biochem 75:295–332
pubmed: 16756494
Wanders RJ, Schumacher H, Heikoop J, Schutgens RB, Tager JM (1992) Human dihydroxyacetonephosphate acyltransferase deficiency: a new peroxisomal disorder. J Inherit Metab Dis 15:389–391
pubmed: 1405476
Wanders RJ, Dekker C, Hovarth VA, Schutgens RB, Tager JM, Van LP, Lecoutere D (1994) Human alkyldihydroxyacetonephosphate synthase deficiency: a new peroxisomal disorder. J Inherit Metab Dis 17:315–318
pubmed: 7807941
Zhao H, Yang Y, Rizo CM, Overbeek PA, Robinson ML (2004) Insertion of a Pax6 consensus binding site into the alphaA-crystallin promoter acts as a lens epithelial cell enhancer in transgenic mice. Invest Ophthalmol Vis Sci 45:1930–1939
pubmed: 15161860
Zhao Y, Wilmarth PA, Cheng C, Limi S, Fowler VM, Zheng D, David LL, Cvekl A (2019) Proteome-transcriptome analysis and proteome remodeling in mouse lens epithelium and fibers. Exp Eye Res 179:32–46
pubmed: 30359574

Auteurs

Muhammad Ali (M)

The Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore MD, USA.

Shahid Y Khan (SY)

The Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore MD, USA.

Tony A Rodrigues (TA)

Instituto de Biologia Celular E Molecular, Universidade Do Porto, Porto, Portugal.
Instituto de Investigação E Inovação Em Saúde, Universidade Do Porto, Porto, Portugal.
Instituto de Ciências Biomédicas Abel Salazar, Universidade Do Porto, Porto, Portugal.

Tânia Francisco (T)

Instituto de Biologia Celular E Molecular, Universidade Do Porto, Porto, Portugal.
Instituto de Investigação E Inovação Em Saúde, Universidade Do Porto, Porto, Portugal.
Instituto de Ciências Biomédicas Abel Salazar, Universidade Do Porto, Porto, Portugal.

Xiaodong Jiao (X)

Ophthalmic Genetics and Visual Function Branch, National Eye Institute, National Institutes of Health, Bethesda, MD, USA.

Hang Qi (H)

Ophthalmic Genetics and Visual Function Branch, National Eye Institute, National Institutes of Health, Bethesda, MD, USA.

Firoz Kabir (F)

The Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore MD, USA.
National Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan.

Bushra Irum (B)

The Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore MD, USA.
National Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan.

Bushra Rauf (B)

The Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore MD, USA.
National Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan.

Asma A Khan (AA)

National Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan.

Azra Mehmood (A)

National Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan.

Muhammad Asif Naeem (MA)

National Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan.

Muhammad Zaman Assir (MZ)

Allama Iqbal Medical College, University of Health Sciences, Lahore, Pakistan.

Muhammad Hassaan Ali (MH)

Allama Iqbal Medical College, University of Health Sciences, Lahore, Pakistan.

Mohsin Shahzad (M)

Jinnah Burn and Reconstructive Surgery Center, Jinnah Hospital, Lahore, Pakistan.
Department of Molecular Biology, Shaheed Zulfiqar Ali Bhutto Medical University, Islamabad, Pakistan.

Khaled K Abu-Amero (KK)

Department of Ophthalmology and Visual Sciences, College of Medicine, University of Illinois, Chicago, IL, USA.

Shehla Javed Akram (SJ)

Akram Medical Complex, Lahore, Pakistan.

Javed Akram (J)

University of Health Sciences, Lahore, Pakistan.

Sheikh Riazuddin (S)

Allama Iqbal Medical College, University of Health Sciences, Lahore, Pakistan.
Jinnah Burn and Reconstructive Surgery Center, Jinnah Hospital, Lahore, Pakistan.
Department of Molecular Biology, Shaheed Zulfiqar Ali Bhutto Medical University, Islamabad, Pakistan.

Saima Riazuddin (S)

Department of Otorhinolaryngology - Head and Neck Surgery, University of Maryland School Medicine, Baltimore, MD, USA.

Michael L Robinson (ML)

Department of Biology, Miami University, Oxford, OH, USA.

Myriam Baes (M)

Department of Pharmaceutical and Pharmacological Sciences, Lab of Cell Metabolism, University of Leuven, Leuven, Belgium.

Jorge E Azevedo (JE)

Instituto de Biologia Celular E Molecular, Universidade Do Porto, Porto, Portugal.
Instituto de Investigação E Inovação Em Saúde, Universidade Do Porto, Porto, Portugal.
Instituto de Ciências Biomédicas Abel Salazar, Universidade Do Porto, Porto, Portugal.

J Fielding Hejtmancik (JF)

Ophthalmic Genetics and Visual Function Branch, National Eye Institute, National Institutes of Health, Bethesda, MD, USA.

S Amer Riazuddin (SA)

The Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore MD, USA. riazuddin@jhmi.edu.

Articles similaires

[Redispensing of expensive oral anticancer medicines: a practical application].

Lisanne N van Merendonk, Kübra Akgöl, Bastiaan Nuijen
1.00
Humans Antineoplastic Agents Administration, Oral Drug Costs Counterfeit Drugs

Smoking Cessation and Incident Cardiovascular Disease.

Jun Hwan Cho, Seung Yong Shin, Hoseob Kim et al.
1.00
Humans Male Smoking Cessation Cardiovascular Diseases Female
Humans United States Aged Cross-Sectional Studies Medicare Part C
1.00
Humans Yoga Low Back Pain Female Male

Classifications MeSH