Man

Daniel Antonio Garrido Cortes

Associate Professor

Pontificia Universidad Católica de Chile

Santiago, Chile

Líneas de Investigación


Research areas and interests: Food microbiology, Functional Foods, Prebiotics and Probiotics, Gut microbiome in health and metabolic diseases, microbiome therapeutics, Systems and Synthetic Biology,

Educación

  •  Food Science, emphasis in Biotechnology, UNIVERSITY OF CALIFORNIA- DAVIS. Estados Unidos, 2012
  •  Engineering in Molecular Biotechnology, UNIVERSIDAD DE CHILE. Chile, 2005
  •  University Teaching, PONTIFICIA UNIVERSIDAD CATOLICA DE CHILE. Chile, 2018

Experiencia Académica

  •   Assistant Professor Full Time

    PONTIFICIA UNIVERSIDAD CATOLICA DE CHILE

    Engineering

    Santiago, Chile

    2013 - 2018

  •   Postdoctoral researcher Full Time

    UNIVERSITY OF CALIFORNIA- DAVIS

    Food Science and Technology

    Davis, Estados Unidos

    2012 - 2013

  •   Associate Professor Full Time

    PONTIFICIA UNIVERSIDAD CATOLICA DE CHILE

    Engineering

    Santiago, Chile

    2019 - A la fecha

Experiencia Profesional

  •   Postdoctoral Researcher Full Time

    University of California Davis

    Davis, Estados Unidos

    2012 - 2013

  •   Consultant Part Time

    Evolve Biosciences

    San Francisco, Estados Unidos

    2012 - 2013

  •   Teaching Assistant Part Time

    University of California, Davis

    Davis, Chile

    2008 - 2011

  •   Director Departamento Full Time

    Pontificia Universidad Católica de Chile

    Chile

    2023 - A la fecha

  •   Jefe Major en Ingeniería Biológica Full Time

    Pontificia Universidad Católica de Chile

    Chile

    2020 - A la fecha

  •   Miembro Comité Institucional Bioseguridad Part Time

    Pontificia Universidad Católica de Chile

    Chile

    2022 - 2022

Formación de Capital Humano


Postdoctoral researchers
Dr. Daniel Medina 2016-2018
Dr. Pamela Thomson 2017-2020
Dr. Arles Urrutia 2021-2022

Graduated, Ph.D. in Engineering Sciences, Pontificia Universidad Catolica de Chile
Juan José Fuentes, 2014-2019 “Genomic Characterization of Cylindrospermopsis Raciborskii a Cyanobacterium Able to Produce Bioactive Compounds”
Rodrigo Santibáñez, 2016-2020 “Development of rule-based models for regulatory mechanisms of gene expression and bacterial metabolism”
Romina Díaz, 2018-2023 “Characterization of metabolic interactions mediated by human milk oligosaccharides for the identification of key species in the infant gut microbiome”
Marco Vega, 2018-2023 “Caracterización de las Interacciones Metabólicas entre Bacterias del Microbioma Intestinal Durante la Utilización de Fibras Dietéticas”

Ph.D. students in progress
Kevin González (U. de Cartagena, Colombia), 2018-to date
Alvaro Altamirano, 2019 to date
Aline Ovalle, 2019 to date
Alexis Torres, 2019 to date
Felipe Melis, 2020 to date
Claudia Silva (codirección; Universidad Mayor, Doctorado Genómica Integrativa)
Joaquín Gutiérrez (codirección; Doctorado Ciencias Biológicas PUC)
Javiera Vásquez, 2023 to date
Enso Torres, 2023 to date
Andrea Marimán, 2023 to date (Ph.D. in Biological and Medical Engineering)

Graduated, Master in Engineering Sciences, Pontificia Universidad Catolica de Chile
Aline Ovalle, 2014-2016, graduated. “Interacciones Mediadas por Prebióticos en un Consorcio Modelo del Microbioma Intestinal Infantil”
Francisco Pinto, 2014-2017, graduated. “Construcción de un Modelo Dinámico Basado en Interacciones Metabólicas entre Especies del Microbioma Intestinal”
Natalia Gutiérrez, 2016-2018, graduated. “Deleción de Especies desde un Consorcio de Microbioma Intestinal Sugiere Interacciones Metabólicas Claves entre Microorganismos”
María José Barra, 2019-2021, graduated. “Engineered bacteria for propionate-repressed expression of sfGFP and GM-CSF”
Belén Hirmas, 2019-2021, graduated. “Bi-directional cultures reveal metabolic cross-feeding between gut commensals”
Loreto Román, 2019-2021, graduated. “Genome-Scale Metabolic Modeling of the Human Milk Oligosaccharide Utilization by Bifidobacterium Longum Subsp. Infantis”
Guillermo Orellana, 2019-2021, graduated. “Modelamiento a Escala Genómica de las Interacciones Metabolicas entre Microorganismos Comensales y Productores de Butirato”
Kineret Serebrinsky, 2020-2022, graduated. “Diseño de un Circuito Génico para la Expresión de sfGFP y GM-CSF Reprimida por Butirato”
Tomás Proschle, 2021-2023, graduated. “Análisis bioinformático y modelación matemática de un consorcio microbiano infantil bajo el consumo de oligosacáridos de leche materna”.

Masters Students In progress
Paula Lobos
Tays Troncoso
Roberto Luarte
Francisca Becker
Pablo Caballero
Liliana Peña
Andrés Canales

Undergraduate Research students, Civil Engineering in Biotechnology
Gonzalo Alcaíno
Andrés Cisneros
Ignacia Cancino
Alexis Suárez
Francisco Pedreros
Guillermo Orellana
María José Barra
Bárbara Coloma
Francisca Rojas
Rosa Godoy
Martín Silva
Daniela Contador
Ricardo Leiva
Adolfo Godoy 2021
Tomás Proschle 2021
Paula Lobos 2021
Rocío Arratia 2022
María José Santibáñez 2022
Tays Troncoso 2022
Andrés Canales 2022
Diego Ulloa 2022
Kaina Galdames 2022
Michelle Gibert 2022
Lucas Lagos 2022
Daniel Lagos 2022
Fernanda Flores 2022
Aarón Velásquez 2023
Sebastián Cordero 2023
Alonso Palma 2023
Ignacio Neira 2023
Luz Elena Moya 2023

Undergraduate thesis, Biochemistry
Samantha Nuñez
Camila Solar
Juan Paulo Pedreros
Amalia Candia
Valentina Briones
Monserrat Díaz
Simón Rojas
Benjamín Guzmán
Sebastián Ávila

Visiting Students
Taylor Hinchliffe, Columbia University


Difusión y Transferencia


Participación en programas Conicyt: "Un Dia con un Científico" y programa Explora dictando charlas educaciones a alumnos de educación media.
Difusión de carreras en ingeniería química y biotecnología a alumnos visitantes del programa Embajadores Ingeniería UC (Instituto O'Higgins de Rancagua, Instituto Nacional, Colegio Internacional Sek Chile, Liceo José Toribio Medina, entre otros)


Premios y Distinciones

  •   Panamerican Bimbo Award

    Bimbo

    Estados Unidos, 2013

    Bimbo Award 2013, award to the best thesis in human nutrition, United States area. Dissertation title: A molecular basis for the enrichment of bifidobacteria in the infant gastrointestinal tract”

  •   Young Investigator Oral Presentation Award

    American Societies for Microbiology

    Estados Unidos, 2012

    Young Investigator Oral Presentation Award. 111th Annual Meeting of the Association of Societies of Microbiology, San Francisco, CA, June 2012.

  •   National Dairy Leadership Scholarship Award.

    National Milk Producers Federation

    Estados Unidos, 2011

    National Milk Producers Federation (NMPF) National Dairy Leadership Scholarship Award. July 2011. Awarded to the most qualified doctoral students in dairy-related sciences in the US.

  •   Fulbright-CONICYT scholarship

    Comisión Fulbright

    Chile, 2006

    Fulbright-CONICYT scholarship for doctoral programs in the U.S. Ministry of Education and Fulbright Chile Commission, 2006.

  •   UCDavis Chile Fellow

    UNIVERSITY OF CALIFORNIA- DAVIS

    Chile, 2017

    Premio destacada trayectoria Ex-alumnos chilenos de UC Davis

  •   Malaspina International Scholar Travel (MIST) 2019 Award

    International Life Sciences Institute

    Estados Unidos, 2018

    Malaspina International Scholar Travel (MIST) 2019 Award, by the International Life Sciences Institute. One of six worldwide scholarships to support travel and engage early-career, academic scientists at the ILSI Annual Meeting and Scientific Symposium.

  •   Associate Editor mSystems

    American Societies for Microbiology

    Estados Unidos, 2020

    Parte del board of editors de la revista mSystems, parte de ASM

  •   Associate Editor Frontiers in Microbiology

    Frontiers

    Suiza, 2021

    Selected as Associate Editor for this journal. Edit 12-15 papers per year.

  •   Associate Editor - Probiotics and Antimicrobial Proteins

    Springer publishers

    Chile, 2022

    Selected as associate editor for this journal. Edit 10 papers a year.

  •   Excellence in Research Award

    PONTIFICIA UNIVERSIDAD CATOLICA DE CHILE

    Chile, 2023

    Awarded to the academic, within the School of Engineering at PUC, with the highest number of publications, projects and citations, in the period 2020-2022

  •   Scientific Committee Panel Member Biología 3

    ANID

    Chile, 2023

    Participation as an expert in the evaluation of Fondecyt grant applications year 2023

  •   Scientific Committee Panel Member Biología 3

    ANID

    Chile, 2020

    Participation as an expert in the evaluation of Fondecyt grant applications year 2020

  •   Scientific Committee Panel Member Biología 3

    ANID

    Chile, 2019

    Participation as an expert in the evaluation of Fondecyt grant applications year 2019


 

Article (49)

Developing a Fluorescent Inducible System for Free Fucose Quantification in Escherichia coli
Engineered Bacteria for Short-Chain-Fatty-Acid-Repressed Expression of Biotherapeutic Molecules
Proteomic analyses of Bacteroides ovatus and Bifidobacterium longum in xylan bidirectional culture shows sugar cross-feeding interactions
Screening Microbial Interactions During Inulin Utilization Reveals Strong Competition and Proteomic Changes in <i>Lacticaseibacillus paracasei</i> M38
Structure of co-expression networks of Bifidobacterium species in response to human milk oligosaccharides
Characterization and Identification of Probiotic Features in Lacticaseibacillus Paracasei Using a Comparative Genomic Analysis Approach
Comparative Genomics of Clostridium baratii Reveals Strain-Level Diversity in Toxin Abundance
Differences in the composition and predicted functions of the intestinal microbiome of obese and normal weight adult dogs
Editorial: Systems modeling: Approaches and applications-Volume II
Metabolic Modeling and Bidirectional Culturing of Two Gut Microbes Reveal Cross-Feeding Interactions and Protective Effects on Intestinal Cells
Modeling approaches for probing cross-feeding interactions in the human gut microbiome
Assessment of Changes in the Oral Microbiome That Occur in Dogs with Periodontal Disease
Comparative Genomic Analysis of Novel Bifidobacterium longum subsp. longum Strains Reveals Functional Divergence in the Human Gut Microbiota
Atlas: automatic modeling of regulation of bacterial gene expression and metabolism using rule-based languages
Editorial: Systems Modeling: Approaches and Applications
Engineered Probiotics for Detection and Treatment of Inflammatory Intestinal Diseases
Inferring composition and function of the human gut microbiome in time and space: A review of genome-scale metabolic modelling tools
Molecular Insights Into O-Linked Glycan Utilization by Gut Microbes
Pleione: A tool for statistical and multi-objective calibration of Rule-based models
Short-term impact of sucralose consumption on the metabolic response and gut microbiome of healthy adults
Species Deletions from Microbiome Consortia Reveal Key Metabolic Interactions between Gut Microbes
Anti-inflammatory effect of microbial consortia during the utilization of dietary polysaccharides
Draft genome sequences of Cylindrospermopsis raciborskii strains CS-508 and MVCC14, isolated from freshwater bloom events in Australia and Uruguay
Evaluating the Capacity of Human Gut Microorganisms to Colonize the Zebrafish Larvae (Danio rerio)
Human milk oligosaccharides and infant gut bifidobacteria: Molecular strategies for their utilization
Simulation and modeling of dietary changes in the infant gut microbiome
Stochastic simulation of multiscale complex systems with PISKaS: A rule-based approach
Distinct patterns in the gut microbiota after surgical or medical therapy in obese patients
Modeling Metabolic Interactions in a Consortium of the Infant Gut Microbiome
Prebiotics Mediate Microbial Interactions in a Consortium of the Infant Gut Microbiome
A novel gene cluster allows preferential utilization of fucosylated milk oligosaccharides in Bifidobacterium longum subsp longum SC596
Identification of Oligosaccharides in Feces of Breast-fed Infants and Their Correlation with the Gut Microbial Community
Comparative transcriptomics reveals key differences in the response to milk oligosaccharides of infant gut-associated bifidobacteria
Glycosylated proteins preserved over millennia: N-glycan analysis of Tyrolean Iceman, Scythian Princess and Warrior
Hydrolysis of milk gangliosides by infant-gut associated bifidobacteria determined by microfluidic chips and high-resolution mass spectrometry
Consumption of human milk glycoconjugates by infant-associated bifidobacteria: mechanisms and implications
Proteomic Analysis of Bifidobacterium longum subsp. infantis Reveals the Metabolic Insight on Consumption of Prebiotics and Host Glycans
Utilization of galactooligosaccharides by Bifidobacterium longum subsp. infantis isolates
Variation in Consumption of Human Milk Oligosaccharides by Infant Gut-Associated Strains of Bifidobacterium breve
A Molecular Basis for Bifidobacterial Enrichment in the Infant Gastrointestinal Tract
Bifidobacterium longum subsp. infantis ATCC 15697 ?-Fucosidases Are Active on Fucosylated Human Milk Oligosaccharides
Endo-β- N -acetylglucosaminidases from Infant Gut-associated Bifidobacteria Release Complex N -glycans from Human Milk Glycoproteins
Release and utilization of N-acetyl-d-glucosamine from human milk oligosaccharides by Bifidobacterium longum subsp. infantis
Oligosaccharide Binding Proteins from Bifidobacterium longum subsp. infantis Reveal a Preference for Host Glycans
Study of the coumarate decarboxylase and vinylphenol reductase activities of Dekkera bruxellensis (anamorph Brettanomyces bruxellensis) isolates
Taqman real-time PCR for the detection and enumeration of Saccharomyces cerevisiae in wine
Characterization of human intestinal bifidobacteria using competitive PCR and PCR-TTGE
Effect of a milk formula with prebiotics on the intestinal microbiota of infants after an antibiotic treatment
Modulation of the fecal microbiota by the intake of a Lactobacillus johnsonii La1-containing product in human volunteers

BookSection (5)

Gut microbiota and Marine Phenolics
Probiotics, Microbiome and the Concept of Cross-Feeding
Recent advances in the infant gut microbiome and health
The Gut Microbiome after Bariatric Surgery
Human Milk Oligosaccharides and Health Promotion Through the Gut Microbiome

ConferencePoster (13)

Emergent Roles of Infant Gut Microbes during Utilization of Human Milk Oligosaccharides
Gene regulatory network for infant Bifidobacterium species
Impact of microbial consortia producing neuroprotective metabolites in an animal model of Parkinson’s disease in Drosophila melanogaster
Interacciones ecológicas en el microbioma intestinal: aplicaciones y psicobióticos
Metabolic interactions and gene expression between members of gut microbiota using glycomacropeptide
Metabolic Interactions Between different Members of the Human Gut Microbiota using Glycomacropeptide
Metabolic interactions in the gut microbiome: models of cooperation and competition
Systematic use of gene expression data for the construction of gene regulatory networks for representative species of the genus Bifidobacterium
Biosensores bacterianos para la detección de fucosa y ácido siálico libre .
Clostridium baratii: Comparative Genomics and Botulism Toxin Production.
Comparative genomics of Clostridia isolated from gut microbiota
Utilization of Glycomacropeptide-derived O-glycans by Representative Members of the Gut Microbiota
• Analysis Of Cross-feeding Interactions During Prebiotic Utilization Reveals Inulin-degrading Lactobacillus Casei M38 Supporting The Growth Of Bacteroides

Patent (3)

Composición, consorcios bacterianos, y usos para la prevención y/o tratamiento de enfermedades neurodegenerativas, enfermedades mentales o trastornos psiquiátricos
METHODS AND COMPOSITIONS FOR IMPROVED DIGESTION OF MILK OLIGOSACCHARIDES
Enzymes and methods for cleaving N-glycans from glycoproteins

Proyecto (22)

Model-Guided Analysis of Microbial Interactions Leading to Colonization Resistance and Dysbiosis in the Gut Microbiota
PhageStop, una formulación de un cóctel de distintos bacteriófagos con acción lítica de precisión contra Salmonella Infantis MDR en carne de pollo
Multiomics analysis of metabolic interactions in a synthetic consortium of gut microbes with butyrogenic effect
Gene Regulatory Networks in Gut Microbiome Consortia
Design of anti-inflammatory gene circuits for gut microbiome therapeutics
Identification and Modeling of Cross-Feeding Interactions in the Gut Microbiome for Designing Microbial Communities
Implementing a Multimodal Fluorescence Reader for Research in Bioengineering.
Modeling metabolic interactions of infant gut microbes during consumption of human milk oligosaccharides
Design of Microbial Consortia for Treatment of Intestinal Inflammatory Diseases
Diseño de Consorcios Microbianos para el Tratamiento de Enfermedades Inflamatorias del Intestino
EVALUACIÓN DEL EFECTO DE LA SUCRALOSA SOBRE LA COMPOSICIÓN Y FUNCIÓN DEL MICROBIOMA INTESTINAL EN SUJETOS SANOS
“Evaluación del efecto de la sucralosa sobre la composición y función del microbioma intestinal en sujetos sanos”
Efecto de endulzantes no nutritivos sobre el metabolismo y la microbiota intestinal
Efecto de endulzantes no nutritivos sobre el metabolismo y la microbiota intestinal
Microbiome engineering and synthetic biology applications for health
Synthetic biology and microbiome applications for health. Design of biological sensors for intestinal delivery
EVALUACIÓN METAGENÓMICA DE LOS CAMBIOS EN LA COMPOSICIÓN Y FUNCIÓN DE LA MICROBIOTA INTESTINAL ASOCIADOS AL TRATAMIENTO DE LA OBESIDAD
Effect of Bariatric Surgery on the Intestinal Microbiota
A defined in vitro fermentation system to study alterations of the intestinal microbiota
A DEFINED IN-VITRO FERMENTATION SYSTEM TO EVALUATE THE IMPACT OF ALTRATIONS OF THE INTESTINAL MICROBIOTA
Effect of Bariatric Surgery on the Intestinal Microbiota
Evaluación metagenómica de los cambios en la composición y función de la microbiota intestinal asociados al tratamiento de la obesidad

Review (1)

Effect of Sucralose Intake on Human and Mouse/Rat Gut Microbiota Composition: A Systematic Review and Meta-Analysis
90
Daniel Garrido

Associate Professor

Chemical and Bioprocess Engineering

Pontificia Universidad Católica de Chile

Santiago, Chile

6
Alberto Martin

Associate professor

Centro Ciencia & Vida

Universidad San Sebastián

Santiago, Chile

3
Daniel Medina

Investigador

Medicina Veterinaria

Universidad San Sebastián

Puerto Montt, Chile

3
MARTIN GOTTELAND

Profesor Titular

Facultad de Medicina

Universidad de Chile

Santiago, Chile

3
Pedro Saa

Profesor Asistente

Departmento de Ingenieria Quimica y Bioprocesos

Pontificia Universidad Catolica de Chile

Santiago, Chile

2
Fabien MAGNE

Profesor asistante

UNIVERSIDAD DE CHILE

Chile

2
Pamela Thomson

assistant professor

Universidad Andrés Bello

Santiago, Chile

2
Claudio Martinez

Profesor Titular

Departamento de Ciencia y Tecnología de Alimentos

Universidad de Santiago de Chile

Santiago, Chile

2
MARIA GANGA

academico jornada completa

Departamento en Ciencia y Tecnologia de los Alimentos

UNIVERSIDAD DE SANTIAGO DE CHILE

Santiago, Chile

1
Juan Ugalde

Assistant Professor

Facultad de Ciencias de la Vida

Universidad Andrés Bello

Santiago, Chile

1
Carmen Feijóo

Profesor asociado

UNIVERSIDAD ANDRES BELLO

Santiago, Chile

1
JOSE GALGANI

ASSOCIATE PROFESSOR

NUTRITION, DIABETES AND METABOLISM; AND UDA-CIENCIAS DE LA SALUD, NUTRICION Y DIETETICA

PONTIFICIA UNIVERSIDAD CATÓLICA DE CHILE

Santiago, Chile

1
José Pérez

Profesor Titular

Ingeniería Química y Bioprocesos

PONTIFICIA UNIVERSIDAD CATOLICA DE CHILE

Santiago, Chile

1
Angelica Reyes

Profesor Asociado

INTA UNIVERSIDAD DE CHILE

Santiago, Chile

1
Paola Navarrete

Associate Professor

INTA

Universidad de Chile

Santiago, Chile

1
Lucy Belmar

Profesor asistente adjunto

Facultad de Ciencias de la Vida

Universidad Andrés Bello

Santiago, Chile

1
Magaly Toro

Profesor Asistente

UNIVERSIDAD DE CHILE

Chile

1
Mario Caruffo

Investigador Post-doctoral

Inmunología en Peces

Universidad Andrés Bello

Santiago, Chile

1
Guillermo Figueroa

Profesor Asociado

Laboratorio: Microbiología de Alimentos y Probióticos

INTA, Universidad de Chile

Santiago, Chile

1
Alejandro Bernardin

Investigador postdoctoral

Fundación Ciencia y Vida

Santiago, Chile

1
Natalia Gutiérrez

Supervisora de estudios sensoriales

Evaluación Sensorial

DICTUC

Macul, Chile

1
Katia Soto

Académica

Universidad de Chile

Santiago, Chile

1
Luz Vásquez

Profesor Asociado

Genética Molecular y Microbiología

Pontificia Universidad Católica de Chile

Santiago, Chile

1
Danilo Pérez

Investigador

Programa Institucional de Fomento a la Investigación, Desarrollo e Innovación

UNIVERSIDAD TECNOLÓGICA METROPOLITANA

Santiago, Chile

1
Francisco Salinas

Profesor Asociado

Instituto de Bioquímica y Microbiolgía

Universidad Austral de Chile

Valdivia, Chile

1
Liliana Godoy

Profesor Asociado

Fruticultura y Enología

Pontificia Universidad Católica de Chile

Santiago, Chile