Pedro Maldonado Coutinho
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Computer Science
Pedro Maldonado Coutinho's Degrees
- PhD Computer Science University of Lisbon
- Masters Computer Engineering University of Porto
- Bachelors Computer Engineering University of Porto
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(Suggest an Edit or Addition)Pedro Maldonado Coutinho's Published Works
Number of citations in a given year to any of this author's works
Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author
Published Works
- The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics (2008) (6803)
- The carbohydrate-active enzymes database (CAZy) in 2013 (2013) (4755)
- The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray) (2006) (4003)
- The Paleozoic Origin of Enzymatic Lignin Decomposition Reconstructed from 31 Fungal Genomes (2012) (1355)
- Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium (2010) (1342)
- Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88 (2007) (1123)
- An evolving hierarchical family classification for glycosyltransferases. (2003) (1099)
- Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita (2008) (1014)
- Expansion of the enzymatic repertoire of the CAZy database to integrate auxiliary redox enzymes (2013) (955)
- Genome sequence of the lignocellulose degrading fungus Phanerochaete chrysosporium strain RP78 (2004) (881)
- Genomic Analysis of the Necrotrophic Fungal Pathogens Sclerotinia sclerotiorum and Botrytis cinerea (2011) (830)
- Carbohydrate-active enzymes : an integrated database approach (1999) (820)
- Three Genomes from the Phylum Acidobacteria Provide Insight into the Lifestyles of These Microorganisms in Soils (2009) (759)
- Characterizing a model human gut microbiota composed of members of its two dominant bacterial phyla (2009) (640)
- Gene-centric metagenomics of the fiber-adherent bovine rumen microbiome reveals forage specific glycoside hydrolases (2009) (626)
- Périgord black truffle genome uncovers evolutionary origins and mechanisms of symbiosis (2010) (623)
- Green Evolution and Dynamic Adaptations Revealed by Genomes of the Marine Picoeukaryotes Micromonas (2009) (618)
- Corrigendum: Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina) (2008) (594)
- Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma (2011) (584)
- Genome, transcriptome, and secretome analysis of wood decay fungus Postia placenta supports unique mechanisms of lignocellulose conversion (2009) (579)
- Evolution of Symbiotic Bacteria in the Distal Human Intestine (2007) (562)
- Obligate biotrophy features unraveled by the genomic analysis of rust fungi (2011) (546)
- Dividing the large glycoside hydrolase family 13 into subfamilies: towards improved functional annotations of alpha-amylase-related proteins. (2006) (527)
- Finished Genome of the Fungal Wheat Pathogen Mycosphaerella graminicola Reveals Dispensome Structure, Chromosome Plasticity, and Stealth Pathogenesis (2011) (515)
- The Plant Cell Wall–Decomposing Machinery Underlies the Functional Diversity of Forest Fungi (2011) (513)
- Genome sequence of the model mushroom Schizophyllum commune (2010) (458)
- Genomic and metabolic adaptations of Methanobrevibacter smithii to the human gut (2007) (446)
- The Genome of Nectria haematococca: Contribution of Supernumerary Chromosomes to Gene Expansion (2009) (407)
- Comparative genomic analysis of the thermophilic biomass-degrading fungi Myceliophthora thermophila and Thielavia terrestris (2011) (391)
- Biosynthesis of cellulose-enriched tension wood in Populus: global analysis of transcripts and metabolites identifies biochemical and developmental regulators in secondary wall biosynthesis. (2006) (387)
- Evolution, substrate specificity and subfamily classification of glycoside hydrolase family 5 (GH5) (2012) (376)
- Genome sequence of the necrotrophic plant pathogen Pythium ultimum reveals original pathogenicity mechanisms and effector repertoire (2010) (370)
- Cyanophora paradoxa Genome Elucidates Origin of Photosynthesis in Algae and Plants (2012) (367)
- Algal genomes reveal evolutionary mosaicism and the fate of nucleomorphs (2012) (349)
- Genome sequence of the button mushroom Agaricus bisporus reveals mechanisms governing adaptation to a humic-rich ecological niche (2012) (333)
- Phylogenetic and gene-centric metagenomics of the canine intestinal microbiome reveals similarities with humans and mice (2010) (322)
- Genome analysis of Bifidobacterium bifidum PRL2010 reveals metabolic pathways for host-derived glycan foraging (2010) (321)
- The genome sequence of the model ascomycete fungus Podospora anserina (2008) (301)
- Multiple lateral gene transfers and duplications have promoted plant parasitism ability in nematodes (2010) (296)
- Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis (2012) (280)
- Poplar Carbohydrate-Active Enzymes. Gene Identification and Expression Analyses1[W] (2006) (279)
- A hierarchical classification of polysaccharide lyases for glycogenomics. (2010) (269)
- Comparative Genome Analysis of Prevotella ruminicola and Prevotella bryantii: Insights into Their Environmental Niche (2010) (248)
- Measuring semantic similarity between Gene Ontology terms (2007) (244)
- Functional metagenomics to mine the human gut microbiome for dietary fiber catabolic enzymes. (2010) (238)
- Insight into trade-off between wood decay and parasitism from the genome of a fungal forest pathogen. (2012) (217)
- Genome of the red alga Porphyridium purpureum (2013) (202)
- Carbohydrate-Active Enzymes Involved in the Secondary Cell Wall Biogenesis in Hybrid Aspen1 (2005) (197)
- The Bifidobacterium dentium Bd1 Genome Sequence Reflects Its Genetic Adaptation to the Human Oral Cavity (2009) (193)
- Post-genomic insights into the plant polysaccharide degradation potential of Aspergillus nidulans and comparison to Aspergillus niger and Aspergillus oryzae. (2009) (147)
- Comparative genomics of the social amoebae Dictyostelium discoideum and Dictyostelium purpureum (2011) (144)
- Complete Genome Sequence of the Complex Carbohydrate-Degrading Marine Bacterium, Saccharophagus degradans Strain 2-40T (2008) (142)
- Cello-Oligosaccharide Oxidation Reveals Differences between Two Lytic Polysaccharide Monooxygenases (Family GH61) from Podospora anserina (2012) (141)
- Glucoamylase structural, functional, and evolutionary relationships (1997) (138)
- Post-genomic analyses of fungal lignocellulosic biomass degradation reveal the unexpected potential of the plant pathogen Ustilago maydis (2012) (137)
- Complete Cellulase System in the Marine Bacterium Saccharophagus degradans Strain 2-40T (2006) (137)
- A census of carbohydrate-active enzymes in the genome of Arabidopsis thaliana (2004) (137)
- Why are there so many carbohydrate-active enzyme-related genes in plants? (2003) (134)
- A census of carbohydrate-active enzymes in the genome of Arabidopsis thaliana. (2001) (133)
- Ten years of CAZypedia: a living encyclopedia of carbohydrate-active enzymes. (2018) (128)
- FOLy: an integrated database for the classification and functional annotation of fungal oxidoreductases potentially involved in the degradation of lignin and related aromatic compounds. (2008) (127)
- Comparative genomics of the white-rot fungi, Phanerochaete carnosa and P. chrysosporium, to elucidate the genetic basis of the distinct wood types they colonize (2012) (126)
- Diversity and Strain Specificity of Plant Cell Wall Degrading Enzymes Revealed by the Draft Genome of Ruminococcus flavefaciens FD-1 (2009) (126)
- The convergence of carbohydrate active gene repertoires in human gut microbes (2008) (122)
- Bifidobacterium asteroides PRL2011 Genome Analysis Reveals Clues for Colonization of the Insect Gut (2012) (121)
- Semantic similarity over the gene ontology: family correlation and selecting disjunctive ancestors (2005) (119)
- Carbohydrate-active enzymes from the zygomycete fungus Rhizopus oryzae: a highly specialized approach to carbohydrate degradation depicted at genome level (2011) (115)
- The 2008 update of the Aspergillus nidulans genome annotation: a community effort. (2009) (111)
- The Complete Genome of Teredinibacter turnerae T7901: An Intracellular Endosymbiont of Marine Wood-Boring Bivalves (Shipworms) (2009) (106)
- How nature can exploit nonspecific catalytic and carbohydrate binding modules to create enzymatic specificity (2012) (105)
- Podospora anserina Hemicellulases Potentiate the Trichoderma reesei Secretome for Saccharification of Lignocellulosic Biomass (2010) (98)
- Glycogen metabolism loss: a common marker of parasitic behaviour in bacteria? (2002) (96)
- Closely related fungi employ diverse enzymatic strategies to degrade plant biomass (2015) (94)
- Secretome analysis of Phanerochaete chrysosporium strain CIRM-BRFM41 grown on softwood (2008) (93)
- Degradation of different pectins by fungi: correlations and contrasts between the pectinolytic enzyme sets identified in genomes and the growth on pectins of different origin (2012) (88)
- The genome of the white-rot fungus Pycnoporus cinnabarinus: a basidiomycete model with a versatile arsenal for lignocellulosic biomass breakdown (2014) (87)
- Finding genomic ontology terms in text using evidence content (2005) (84)
- Modulation of cellulosome composition in Clostridium cellulolyticum: Adaptation to the polysaccharide environment revealed by proteomic and carbohydrate‐active enzyme analyses (2010) (82)
- Structure-function relationships in the catalytic and starch binding domains of glucoamylase. (1994) (80)
- Genomic and transcriptomic analysis of Laccaria bicolor CAZome reveals insights into polysaccharides remodelling during symbiosis establishment. (2014) (75)
- Effects of dietary fiber on the feline gastrointestinal metagenome. (2012) (72)
- Abundance and Diversity of Dockerin-Containing Proteins in the Fiber-Degrading Rumen Bacterium, Ruminococcus flavefaciens FD-1 (2010) (68)
- Rumen Cellulosomics: Divergent Fiber-Degrading Strategies Revealed by Comparative Genome-Wide Analysis of Six Ruminococcal Strains (2014) (67)
- Exploring the Natural Fungal Biodiversity of Tropical and Temperate Forests toward Improvement of Biomass Conversion (2012) (63)
- Crystal structure of α-galactosidase from Lactobacillus acidophilus NCFM: insight into tetramer formation and substrate binding. (2011) (63)
- Implementation of a Functional Semantic Similarity Measure between Gene-Products (2003) (60)
- Carbohydrate-Active Enzymes sever (1999) (57)
- Stabilization of Aspergillus awamori glucoamylase by proline substitution and combining stabilizing mutations. (1998) (57)
- Genome-wide analysis of acetivibrio cellulolyticus provides a blueprint of an elaborate cellulosome system (2012) (55)
- Effect on thermostability and catalytic activity of introducing disulfide bonds into Aspergillus awamori glucoamylase. (1998) (54)
- Complexity of the Ruminococcus flavefaciens cellulosome reflects an expansion in glycan recognition (2016) (52)
- Fast solubilization of recalcitrant cellulosic biomass by the basidiomycete fungus Laetisaria arvalis involves successive secretion of oxidative and hydrolytic enzymes (2014) (45)
- The chimeric nature of the genomes of marine magnetotactic coccoid‐ovoid bacteria defines a novel group of Proteobacteria (2017) (44)
- Carbohydrate-Active Enzymes (2020) (44)
- Insights into Exo- and Endoglucanase Activities of Family 6 Glycoside Hydrolases from Podospora anserina (2013) (44)
- Structural similarities in glucoamylase by hydrophobic cluster analysis. (1994) (43)
- Comparative genomic analysis provides insights into the evolution and niche adaptation of marine Magnetospira sp. QH-2 strain. (2014) (43)
- Sphingomonas paucimobilis beta-glucosidase Bgl1: a member of a new bacterial subfamily in glycoside hydrolase family 1. (2003) (43)
- The α-glucuronidase Agu1 from Schizophyllum commune is a member of a novel glycoside hydrolase family (GH115) (2011) (43)
- A thermostable GH45 endoglucanase from yeast: impact of its atypical multimodularity on activity (2011) (42)
- Recognition of the Helical Structure of β-1,4-Galactan by a New Family of Carbohydrate-binding Modules* (2010) (42)
- First Structural Insights into α-l-Arabinofuranosidases from the Two GH62 Glycoside Hydrolase Subfamilies* (2014) (42)
- Comparative analyses of Podospora anserina secretomes reveal a large array of lignocellulose-active enzymes (2014) (42)
- Analysis of the structural and functional diversity of plant cell wall specific family 6 carbohydrate binding modules. (2009) (42)
- Signature active site architectures illuminate the molecular basis for ligand specificity in family 35 carbohydrate binding module. (2010) (40)
- Aspergillus aculeatus beta-1,4-galactanase: substrate recognition and relations to other glycoside hydrolases in clan GH-A. (2002) (39)
- Evolutionary and mechanistic relationships between glycosidases acting on α- and β-bonds☆ (2005) (39)
- A Novel, Noncatalytic Carbohydrate-binding Module Displays Specificity for Galactose-containing Polysaccharides through Calcium-mediated Oligomerization* (2011) (38)
- A Novel Unsaturated β-Glucuronyl Hydrolase Involved in Ulvan Degradation Unveils the Versatility of Stereochemistry Requirements in Family GH105* (2014) (38)
- The CAZy Database/the Carbohydrate-Active Enzyme (CAZy) Database: Principles and Usage Guidelines (2017) (37)
- Carbohydrate-related enzymes of important Phytophthora plant pathogens. (2014) (37)
- Automated docking of monosaccharide substrates and analogues and methyl α‐Acarviosinide in the glucoamylase active site (1997) (35)
- Transcriptional profiling of cellulase and expansin-related genes in a hypercellulolytic Trichoderma reesei (2009) (35)
- The Cyst-Dividing Bacterium Ramlibacter tataouinensis TTB310 Genome Reveals a Well-Stocked Toolbox for Adaptation to a Desert Environment (2011) (35)
- Automated docking of maltose, 2‐deoxymaltose, and maltotetraose into the soybean β‐amylase active site (1999) (35)
- A new archaeal beta-glycosidase from Sulfolobus solfataricus: seeding a novel retaining beta-glycan-specific glycoside hydrolase family along with the human non-lysosomal glucosylceramidase GBA2. (2010) (34)
- Gene Overexpression and Biochemical Characterization of the Biotechnologically Relevant Chlorogenic Acid Hydrolase from Aspergillus niger (2007) (33)
- Replacement and deletion mutations in the catalytic domain and belt region of Aspergillus awamori glucoamylase to enhance thermostability. (2000) (33)
- Carbohydrate utilization and metabolism is highly differentiated in Agaricus bisporus (2013) (32)
- Deletion analysis of the starch-binding domain of Aspergillus glucoamylase. (1995) (31)
- Thermosensitive mutants of Aspergillus awamori glucoamylase by random mutagenesis: inactivation kinetics and structural interpretation. (1994) (24)
- Automated docking of glucosyl disaccharides in the glucoamylase active site (1997) (24)
- Carbohydrate-active enzymes from pigmented Bacilli: a genomic approach to assess carbohydrate utilization and degradation (2011) (22)
- Cellulosome‐like sequences in Archaeoglobus fulgidus: an enigmatic vestige of cohesin and dockerin domains (1999) (21)
- Automated Docking of α-(1,4)- and α-(1,6)-Linked Glucosyl Trisaccharides in the Glucoamylase Active Site (1998) (20)
- Mutations to alter Aspergillus awamori glucoamylase selectivity. I. Tyr48Phe49-->Trp, Tyr116-->Trp, Tyr175-->Phe, Arg241-->Lys, Ser411-->Ala and Ser411-->Gly. (1998) (18)
- Tracking of enzymatic biomass deconstruction by fungal secretomes highlights markers of lignocellulose recalcitrance (2019) (18)
- Mutations to alter Aspergillus awamori glucoamylase selectivity. III. Asn20-->Cys/Ala27-->Cys, Ala27-->Pro, Ser30-->Pro, Lys108-->Arg, Lys108-->Met, Gly137-->Ala, 311-314 Loop, Tyr312-->Trp and Ser436-->Pro. (1998) (18)
- Cassette mutagenesis of Aspergillus awamori glucoamylase near its general acid residue to probe its catalytic and pH properties. (1993) (17)
- Multiple rewards from a treasure trove of novel glycoside hydrolase and polysaccharide lyase structures: new folds, mechanistic details, and evolutionary relationships. (2013) (17)
- Intrinsic dynamic behavior of enzyme:substrate complexes govern the catalytic action of β-galactosidases across clan GH-A (2019) (17)
- Automated docking of isomaltose analogues in the glucoamylase active site (1997) (17)
- Raffinose family oligosaccharide utilisation by probiotic bacteria: insight into substrate recognition, molecular architecture and diversity of GH36 α-galactosidases (2012) (16)
- Lignin from oil palm empty fruit bunches: Characterization, biological activities and application in green synthesis of silver nanoparticles. (2020) (14)
- Eukaryote to gut bacteria transfer of a glycoside hydrolase gene essential for starch breakdown in plants (2012) (14)
- ProFAL: PROtein Functional Annotation through Literature (2003) (13)
- Erratum: Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis (Proceedings of the National Academy of Sciences (2012) 109 (5458-5463) DOI: 10.1073/pnas. 1119912109) (2012) (12)
- Mutations to alter Aspergillus awamori glucoamylase selectivity (1998) (10)
- Composting-Like Conditions Are More Efficient for Enrichment and Diversity of Organisms Containing Cellulase-Encoding Genes than Submerged Cultures (2016) (10)
- The Families of Carbohydrate-Active Enzymes in the Genomic Era (2003) (10)
- Evolutionary and mechanistic relationships between glycosidases acting on alpha- and beta-bonds. (2005) (10)
- FiGO: Finding GO Terms in Unstructured Text (2004) (9)
- A New Archaeal β-Glycosidase from Sulfolobus solfataricus (2010) (9)
- Erratum: Genome sequence of the lignocellulose degrading fungus Phanerochaete chrysosporium strain RP78 (2004) (9)
- Improving Information Extraction through Biological Correlation (2003) (9)
- Mutation of fungal endoglucanases into glycosynthases and characterization of their acceptor substrate specificity (2007) (8)
- Carbohydrate-Active Enzymes Database: Principles and Classification of Glycosyltransferases (2009) (8)
- (Hemi-)Cellulose Degrading Enzymes and Their Encoding Genes from Aspergillus and Trichoderma (2011) (7)
- Correction for Fernandez-Fueyo et al., Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis (2012) (5)
- Erratum: Genome sequence of the button mushroom Agaricus bisporus reveals mechanisms governing adaptation to a humic-rich ecological niche (Proceedings of the National Academy of Sciences of the United States of America (2012) 109 (17501-17506) DOI: 10.1073/pnas.1206847109) (2013) (5)
- Curating Extracted Information through the Correlation between Structure and Function (2003) (5)
- PLANT POLYSACCHARIDE DEGRADATION BY FUNGI (2011) (4)
- Formation of Mushrooms and Lignocellulose Degradation Encoded in the Genomes Sequence of Schizophyllum Commune (2011) (3)
- Classifying Biomedical Articles using Web Resources: application to KDD Cup 02 (2003) (3)
- The rational design of an iminosugar inhibitor able to mimic substrate distortion occurring during retaining-cellulase hydrolysis (2001) (2)
- Corrigendum: Genome sequence of the lignocellulose degrading fungus Phanerochaete chrysosporium strain RP78 (2004) (2)
- Degradation of different pectins by fungi: correlations and contrasts between the pectinolytic enzyme sets identified in genomes and the growth on pectins of different origin (2012) (2)
- Cloning and sequence analysis of the ces10 gene encoding a Sphingomonas paucimobilis esterase (2003) (2)
- Annotating Carbohydrate‐Active Enzymes in Plant Genomes: Present Challenges (2010) (2)
- Validating associations in biological databases (2006) (2)
- Integrated genomic and transcriptomic analysis reveals mycoparasitism as the ancestoral life style of Trichoderma (2011) (1)
- Computational studies of glucoamylase selectivity (1996) (1)
- ReBIL: Relating Biological Information through Literature (2003) (1)
- Exploring Gene Ontology relationships in Enzyme Families: An application to Polysaccharide Lyases (2011) (1)
- Evolution, substrate specificity and subfamily classification of glycoside hydrolase family 5 (GH5) (2012) (1)
- Automated Docking of Glucoamylase Substrates and Inhibitors (1996) (1)
- Post-genomic analyses of fungal lignocellulosic biomass degradation reveal the unexpected potential of the plant pathogen Ustilago maydis (2012) (1)
- Validation of Automated Protein Annotation (2005) (1)
- Sequence Families and Modular Organization of Carbohydrate-Active Enzymes (2003) (1)
- Supplemental Science 2012 (2015) (0)
- Atomic resolution structure of TmCBM61 in complex with beta-1,4- galactotriose (2010) (0)
- The Heterobasidion irregulare genome project. (2013) (0)
- , David Aspergillus niger Relevant Chlorogenic Acid Hydrolase from Characterization of the Biotechnologically Gene Overexpression and Biochemical (2007) (0)
- Exploring biomass degrading communities for lignocellulolytic activities (2014) (0)
- Crystal structure of a novel unsaturated beta-glucuronyl hydrolase enzyme, belonging to family GH105, involved in ulvan degradation (2014) (0)
- CBM62 in complex with arabinobiose (2011) (0)
- Validating Associations in Biological Databases c ACM, 2006 This is the authors version of the work. It is posted here by permission of ACM for your personal use. Not for redistribution. The definitive version was published in the CIKM´06 proccedings. (2006) (0)
- Comparative analyses of Podospora anserina secretomes reveal a large array of lignocellulose-active enzymes (2014) (0)
- CBM62 from Clostridium thermocellum Xyl5A (2011) (0)
- Structure of TmCBM61 in complex with beta-1,4-galactotriose at 1.4 A resolution (2010) (0)
- The genome of the white-rot fungus Pycnoporus cinnabarinus: a basidiomycete model with a versatile arsenal for lignocellulosic biomass breakdown (2014) (0)
- Carbohydrate utilization and metabolism is highly differentiated in Agaricus bisporus (2013) (0)
- Crystal Structure of a Family 6 Carbohydrate-Binding Module from Clostridium cellulolyticum in complex with xylose (2009) (0)
- Enzyme family coherence assessment: validation and prediction (2009) (0)
- XTRACTED I NFORMATION THROUGH THE C ORRELATION BETWEEN S TRUCTURE AND F UNCTION (2003) (0)
- from Podospora anserina Hydrolases Activities of Family 6 Glycoside Insights into Exo- and Endoglucanase (2013) (0)
- CBM62 in complex with 6-alpha-D-Galactosyl-mannotriose (2011) (0)
- CORRECTIONS (2015) (0)
- Characterization of a CBM43 module from hybrid aspen (Populus tremula x tremuloides): specificity of polysaccharide interaction and bioinformatic analysis (2006) (0)
- CBM62 in complex with xyloglucan oligosaccharide (2011) (0)
- Intrinsic dynamic behavior of enzyme:substrate complexes govern the catalytic action of β-galactosidases across clan GH-A (2019) (0)
- the Get 3-Receptor Complex Structural Basis for Tail-Anchored Membrane Protein Biogenesis (2013) (0)
- Process for the production of alcohol from lignocellulosic biomass by complementation of cellulolytic and hemicellulolytic enzymes of Trichoderma reesei by the fungus Podospora anserina (2011) (0)
- Requirements in Family GH 105 Unveils the Versatility of Stereochemistry Hydrolase Involved in Ulvan Degradation-Glucuronyl β A Novel Unsaturated Glycobiology and Extracellular Matrices : (2014) (0)
- Genome-wide analysis of Acetivibrio cellulolyticus provides a blueprint of an elaborate cellulosome system (2012) (0)
- Comparative genomics of the white-rot fungi, Phanerochaete carnosa and P. chrysosporium, to elucidate the genetic basis of the distinct wood types they colonize (2012) (0)
- The complexity of the Ruminococcus flavefaciens cellulosome reflects an expansion in glycan recognition (2016) (0)
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