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Grandis A, Leite DCC, Tavares EQP, Arenque-Musa BC, Gaiarsa JW, Martins MCM, De Souza AP, Gomez LD, Fabbri C, Mattei B, Buckeridge MS. Cell wall hydrolases act in concert during aerenchyma development in sugarcane roots. Ann Bot 2019; 124:1067-1089. [PMID: 31190078 PMCID: PMC6881219 DOI: 10.1093/aob/mcz099] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/11/2019] [Accepted: 06/07/2019] [Indexed: 05/09/2023]
Abstract
BACKGROUND AND AIMS Cell wall disassembly occurs naturally in plants by the action of several glycosyl-hydrolases during different developmental processes such as lysigenous and constitutive aerenchyma formation in sugarcane roots. Wall degradation has been reported in aerenchyma development in different species, but little is known about the action of glycosyl-hydrolases in this process. METHODS In this work, gene expression, protein levels and enzymatic activity of cell wall hydrolases were assessed. Since aerenchyma formation is constitutive in sugarcane roots, they were assessed in segments corresponding to the first 5 cm from the root tip where aerenchyma develops. KEY RESULTS Our results indicate that the wall degradation starts with a partial attack on pectins (by acetyl esterases, endopolygalacturonases, β-galactosidases and α-arabinofuranosidases) followed by the action of β-glucan-/callose-hydrolysing enzymes. At the same time, there are modifications in arabinoxylan (by α-arabinofuranosidases), xyloglucan (by XTH), xyloglucan-cellulose interactions (by expansins) and partial hydrolysis of cellulose. Saccharification revealed that access to the cell wall varies among segments, consistent with an increase in recalcitrance and composite formation during aerenchyma development. CONCLUSION Our findings corroborate the hypothesis that hydrolases are synchronically synthesized, leading to cell wall modifications that are modulated by the fine structure of cell wall polymers during aerenchyma formation in the cortex of sugarcane roots.
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Affiliation(s)
- Adriana Grandis
- Laboratory of Plant Physiological Ecology (LAFIECO), Department of Botany, Institute of Biosciences, University of São Paulo, São Paulo, SP, Brazil
| | - Débora C C Leite
- Laboratory of Plant Physiological Ecology (LAFIECO), Department of Botany, Institute of Biosciences, University of São Paulo, São Paulo, SP, Brazil
| | - Eveline Q P Tavares
- Laboratory of Plant Physiological Ecology (LAFIECO), Department of Botany, Institute of Biosciences, University of São Paulo, São Paulo, SP, Brazil
| | - Bruna C Arenque-Musa
- Laboratory of Plant Physiological Ecology (LAFIECO), Department of Botany, Institute of Biosciences, University of São Paulo, São Paulo, SP, Brazil
| | - Jonas W Gaiarsa
- GaTE Lab, Department of Botany, Institute of Bioscience, University of São Paulo, São Paulo, Brazil
| | - Marina C M Martins
- Laboratory of Plant Physiological Ecology (LAFIECO), Department of Botany, Institute of Biosciences, University of São Paulo, São Paulo, SP, Brazil
| | - Amanda P De Souza
- Laboratory of Plant Physiological Ecology (LAFIECO), Department of Botany, Institute of Biosciences, University of São Paulo, São Paulo, SP, Brazil
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Leonardo D Gomez
- Centre for Novel Agricultural Products, Department of Biology, University of York, UK
| | - Claudia Fabbri
- Department of Biology and Biotechnology ‘C. Darwin’, University of Rome – Sapienza, Italy
| | - Benedetta Mattei
- Department of Biology and Biotechnology ‘C. Darwin’, University of Rome – Sapienza, Italy
- Department of Life, Health and Environmental Sciences, University of L’Aquila, Italy
| | - Marcos S Buckeridge
- Laboratory of Plant Physiological Ecology (LAFIECO), Department of Botany, Institute of Biosciences, University of São Paulo, São Paulo, SP, Brazil
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Tavares EQP, De Souza AP, Romim GH, Grandis A, Plasencia A, Gaiarsa JW, Grima-Pettenati J, de Setta N, Van Sluys MA, Buckeridge MS. The control of endopolygalacturonase expression by the sugarcane RAV transcription factor during aerenchyma formation. J Exp Bot 2019; 70:497-506. [PMID: 30605523 PMCID: PMC6322575 DOI: 10.1093/jxb/ery362] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/04/2018] [Accepted: 10/10/2018] [Indexed: 05/22/2023]
Abstract
The development of lysigenous aerenchyma starts with cell expansion and degradation of pectin from the middle lamella, leading to cell wall modification, and culminating with cell separation. Here we report that nutritional starvation of sugarcane induced gene expression along sections of the first 5 cm of the root and between treatments. We selected two candidate genes: a RAV transcription factor, from the ethylene response factors superfamily, and an endopolygalacturonase (EPG), a glycosyl hydrolase related to homogalacturonan hydrolysis from the middle lamella. epg1 and rav1 transcriptional patterns suggest they are essential genes at the initial steps of pectin degradation during aerenchyma development in sugarcane. Due to the high complexity of the sugarcane genome, rav1 and epg1 were sequenced from 17 bacterial artificial chromosome clones containing hom(e)ologous genomic regions, and the sequences were compared with those of Sorghum bicolor. We used one hom(e)olog sequence from each gene for transactivation assays in tobacco. rav1 was shown to bind to the epg1 promoter, repressing β-glucuronidase activity. RAV repression upon epg1 transcription is the first reported link between ethylene regulation and pectin hydrolysis during aerenchyma formation. Our findings may help to elucidate cell wall degradation in sugarcane and therefore contribute to second-generation bioethanol production.
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Affiliation(s)
- Eveline Q P Tavares
- Departamento de Botânica, Instituto de Biociências, Universidade de São Paulo, SP, Brazil
| | - Amanda P De Souza
- Departamento de Botânica, Instituto de Biociências, Universidade de São Paulo, SP, Brazil
| | - Grayce H Romim
- Departamento de Botânica, Instituto de Biociências, Universidade de São Paulo, SP, Brazil
| | - Adriana Grandis
- Departamento de Botânica, Instituto de Biociências, Universidade de São Paulo, SP, Brazil
| | - Anna Plasencia
- LRSV, Laboratoire de Recherche en Sciences Végétales, UMR5546, Université Paul Sabatier Toulouse III/CNRS Castanet-Tolosan, France
| | - Jonas W Gaiarsa
- Departamento de Botânica, Instituto de Biociências, Universidade de São Paulo, SP, Brazil
- Tau Bioinformatics, São Paulo, SP, Brazil
| | - Jacqueline Grima-Pettenati
- LRSV, Laboratoire de Recherche en Sciences Végétales, UMR5546, Université Paul Sabatier Toulouse III/CNRS Castanet-Tolosan, France
| | - Nathalia de Setta
- Departamento de Botânica, Instituto de Biociências, Universidade de São Paulo, SP, Brazil
- Centro de Ciências Naturais e Humanas. Universidade Federal do ABC, São André, SP, Brazil
| | - Marie-Anne Van Sluys
- Departamento de Botânica, Instituto de Biociências, Universidade de São Paulo, SP, Brazil
| | - Marcos S Buckeridge
- Departamento de Botânica, Instituto de Biociências, Universidade de São Paulo, SP, Brazil
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Castoldi A, Andrade-Oliveira V, Aguiar CF, Amano MT, Lee J, Miyagi MT, Latância MT, Braga TT, da Silva MB, Ignácio A, Carola Correia Lima JD, Loures FV, Albuquerque JAT, Macêdo MB, Almeida RR, Gaiarsa JW, Luévano-Martínez LA, Belchior T, Hiyane MI, Brown GD, Mori MA, Hoffmann C, Seelaender M, Festuccia WT, Moraes-Vieira PM, Câmara NOS. Dectin-1 Activation Exacerbates Obesity and Insulin Resistance in the Absence of MyD88. Cell Rep 2017; 19:2272-2288. [PMID: 28614714 PMCID: PMC9261359 DOI: 10.1016/j.celrep.2017.05.059] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2016] [Revised: 03/25/2017] [Accepted: 05/16/2017] [Indexed: 12/22/2022] Open
Affiliation(s)
- Angela Castoldi
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil.
| | - Vinicius Andrade-Oliveira
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | - Cristhiane Favero Aguiar
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | - Mariane Tami Amano
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil; Instituto Sírio-Libanês de Ensino e Pesquisa, Hospital Sírio-Libanês, São Paulo, SP 01308-060, Brazil
| | - Jennifer Lee
- Division of Endocrinology, Diabetes, and Metabolism, Department of Medicine, Beth Israel Deaconess Medical Center and Harvard Medical School, Boston, MA 02215, USA
| | - Marcelli Terumi Miyagi
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | - Marcela Teatin Latância
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil; Instituto Sírio-Libanês de Ensino e Pesquisa, Hospital Sírio-Libanês, São Paulo, SP 01308-060, Brazil
| | - Tarcio Teodoro Braga
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | - Marina Burgos da Silva
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | - Aline Ignácio
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | | | - Flavio V Loures
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | - José Antonio T Albuquerque
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | - Marina Barguil Macêdo
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | - Rafael Ribeiro Almeida
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil; Laboratório Especial de Inovação e Desenvolvimento Industrial, Instituto Butantan, São Paulo, SP 05503-900, Brazil
| | - Jonas W Gaiarsa
- Tau GC Bioinformatics, Rua Apiacas, 886, São Paulo, SP 05017-020, Brazil
| | - Luis A Luévano-Martínez
- Departamento de Bioquímica, Instituto de Química, Universidade de São Paulo, São Paulo, SP 13565-905, Brazil
| | - Thiago Belchior
- Department of Physiology and Biophysics, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | - Meire Ioshie Hiyane
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | - Gordon D Brown
- MRC Centre for Medical Mycology, Aberdeen Fungal Group, School of Medicine, Medical Sciences & Nutrition, Institute of Medical Sciences, University of Aberdeen, Aberdeen AB24 3FX, UK
| | - Marcelo A Mori
- Department of Biochemistry and Tissue Biology, Institute of Biology, University of Campinas, Campinas, SP 13083-970, Brazil
| | - Christian Hoffmann
- Food Research Center - FoRC, Department of Food Sciences and Experimental Nutrition, School of Pharmaceutical Sciences, University of São Paulo, São Paulo, SP 05508-080, Brazil
| | - Marília Seelaender
- Department of Cellular Biology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | - Willian T Festuccia
- Department of Physiology and Biophysics, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil
| | - Pedro Manoel Moraes-Vieira
- Department of Genetics, Evolution and Bioagents, Institute of Biology, University of Campinas, Campinas, SP 13083-970, Brazil
| | - Niels Olsen Saraiva Câmara
- Department of Immunology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, SP 05508-900, Brazil; Nephrology Division, Laboratory of Clinical and Experimental Immunology, Federal University of São Paulo, São Paulo, SP 04023-900, Brazil; Department of Medicine, Laboratory of Renal Physiology (LIM 16), University of São Paulo, São Paulo, SP 05403-000, Brazil.
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Meireles DA, Domingos RM, Gaiarsa JW, Ragnoni EG, Bannitz-Fernandes R, da Silva Neto JF, de Souza RF, Netto LES. Functional and evolutionary characterization of Ohr proteins in eukaryotes reveals many active homologs among pathogenic fungi. Redox Biol 2017; 12:600-609. [PMID: 28391181 PMCID: PMC5384416 DOI: 10.1016/j.redox.2017.03.026] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2017] [Revised: 03/17/2017] [Accepted: 03/24/2017] [Indexed: 01/31/2023] Open
Abstract
Ohr and OsmC proteins comprise two subfamilies within a large group of proteins that display Cys-based, thiol dependent peroxidase activity. These proteins were previously thought to be restricted to prokaryotes, but we show here, using iterated sequence searches, that Ohr/OsmC homologs are also present in 217 species of eukaryotes with a massive presence in Fungi (186 species). Many of these eukaryotic Ohr proteins possess an N-terminal extension that is predicted to target them to mitochondria. We obtained recombinant proteins for four eukaryotic members of the Ohr/OsmC family and three of them displayed lipoyl peroxidase activity. Further functional and biochemical characterization of the Ohr homologs from the ascomycete fungus Mycosphaerella fijiensis Mf_1 (MfOhr), the causative agent of Black Sigatoka disease in banana plants, was pursued. Similarly to what has been observed for the bacterial proteins, we found that: (i) the peroxidase activity of MfOhr was supported by DTT or dihydrolipoamide (dithiols), but not by β-mercaptoethanol or GSH (monothiols), even in large excess; (ii) MfOhr displayed preference for organic hydroperoxides (CuOOH and tBOOH) over hydrogen peroxide; (iii) MfOhr presented extraordinary reactivity towards linoleic acid hydroperoxides (k=3.18 (±2.13)×108 M−1 s−1). Both Cys87 and Cys154 were essential to the peroxidase activity, since single mutants for each Cys residue presented no activity and no formation of intramolecular disulfide bond upon treatment with hydroperoxides. The pKa value of the Cysp residue was determined as 5.7±0.1 by a monobromobimane alkylation method. Therefore, eukaryotic Ohr peroxidases share several biochemical features with prokaryotic orthologues and are preferentially located in mitochondria. Ohr/OsmC proteins are also present in lower eukaryotic organisms. While Ohr proteins are massively present among Fungi, OsmC proteins are restricted to the cellular slime molds. Eukaryotic Ohr and OsmC present a thiol dependent peroxidase activity similar to the bacterial counterparts. Most of these eukaryotic enzymes are predominantly present in mitochondria.
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Affiliation(s)
- D A Meireles
- Departmento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, São Paulo, SP, Brazil.
| | - R M Domingos
- Departmento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, São Paulo, SP, Brazil
| | - J W Gaiarsa
- Departmento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, São Paulo, SP, Brazil
| | - E G Ragnoni
- Departmento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, São Paulo, SP, Brazil
| | - R Bannitz-Fernandes
- Departmento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, São Paulo, SP, Brazil
| | - J F da Silva Neto
- Departamento de Biologia Celular e Molecular e Bioagentes Patogênicos, Faculdade de Medicina de Ribeirão Preto, Universidade de São Paulo, Ribeirão Preto, SP, Brazil
| | - R F de Souza
- Departmento de Microbiologia, Instituto de Ciências Biomédicas, Universidade de São Paulo, São Paulo, SP, Brazil
| | - L E S Netto
- Departmento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, São Paulo, SP, Brazil.
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Metcalfe CJ, Oliveira SG, Gaiarsa JW, Aitken KS, Carneiro MS, Zatti F, Van Sluys MA. Using quantitative PCR with retrotransposon-based insertion polymorphisms as markers in sugarcane. J Exp Bot 2015; 66:4239-50. [PMID: 26093024 PMCID: PMC4493790 DOI: 10.1093/jxb/erv283] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/09/2023]
Abstract
Sugarcane is the main source of the world's sugar and is becoming increasingly important as a source of biofuel. The highly polyploid and heterozygous nature of the sugarcane genome has meant that characterization of the genome has lagged behind that of other important crops. Here we developed a method using a combination of quantitative PCR with a transposable marker system to score the relative number of alleles with a transposable element (TE) present at a particular locus. We screened two genera closely related to Saccharum (Miscanthus and Erianthus), wild Saccharum, traditional cultivars, and 127 modern cultivars from Brazilian and Australian breeding programmes. We showed how this method could be used in various ways. First, we showed that the method could be extended to be used as part of a genotyping system. Secondly, the history of insertion and timing of the three TEs examined supports our current understanding of the evolution of the Saccharum complex. Thirdly, all three TEs were found in only one of the two main lineages leading to the modern sugarcane cultivars and are therefore the first TEs identified that could potentially be used as markers for Saccharum spontaneum.
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Affiliation(s)
- Cushla J Metcalfe
- GaTE-Lab, Departamento de Botânica, IBUSP, Universidade de São Paulo, rua do Matao 277, 05508-090, SP, Brazil
| | - Sarah G Oliveira
- GaTE-Lab, Departamento de Botânica, IBUSP, Universidade de São Paulo, rua do Matao 277, 05508-090, SP, Brazil
| | - Jonas W Gaiarsa
- GaTE-Lab, Departamento de Botânica, IBUSP, Universidade de São Paulo, rua do Matao 277, 05508-090, SP, Brazil
| | - Karen S Aitken
- CSIRO Agriculture Flagship, Queensland Bioscience Precinct, 306 Carmody Road, St Lucia, QLD 4072, Australia
| | - Monalisa S Carneiro
- Centro de Ciências Agrárias, Universidade Federal de São Carlos, Araras, 13600-970, SP, Brazil
| | - Fernanda Zatti
- Centro de Ciências Agrárias, Universidade Federal de São Carlos, Araras, 13600-970, SP, Brazil
| | - Marie-Anne Van Sluys
- GaTE-Lab, Departamento de Botânica, IBUSP, Universidade de São Paulo, rua do Matao 277, 05508-090, SP, Brazil
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