José F Cobo-Díaz

Affiliations

Department of Food Hygiene and Technology, Institute of Food Science and Technology, Universidad de León, León, Spain.

Publications (34)

Unveiling the microevolution of antimicrobial resistance in selected Pseudomonas aeruginosa isolates from Egyptian healthcare settings: A genomic approach.

Scientific reports

Avec: Salma Salem , Nehal Adel Abdelsalam , Ahmed H Shata , Shaimaa F Mouftah , José F Cobo-Díaz , Dina Osama , Reham Atteya , Mohamed Elhadidy

Microbiome mapping in dairy industry reveals new species and genes for probiotic and bioprotective activities.

NPJ biofilms and microbiomes

Avec: Francesca De Filippis , Vincenzo Valentino , Min Yap , Raul Cabrera-Rubio , Coral Barcenilla , Niccolò Carlino , José F Cobo-Díaz , Narciso Martín Quijada , Inés Calvete-Torre , Patricia Ruas-Madiedo , Carlos Sabater , Giuseppina Sequino , Edoardo Pasolli , Martin Wagner , Abelardo Margolles , Nicola Segata , Avelino Álvarez-Ordóñez , Paul D Cotter , Danilo Ercolini

Overview of Antimicrobial Resistant ESKAPEE Pathogens in Food Sources and Their Implications from a One Health Perspective.

Microorganisms

Avec: Naomi Oyenuga , José Francisco Cobo-Díaz , Avelino Alvarez-Ordóñez , Elena-Alexandra Alexa

Genomic dynamics of high-risk carbapenem-resistant klebsiella pneumoniae clones carrying hypervirulence determinants in Egyptian clinical settings.

BMC infectious diseases

Avec: Nehal Adel Abdelsalam , Shahira A ElBanna , Shaimaa F Mouftah , José F Cobo-Díaz , Ahmed H Shata , Sherine M Shawky , Reham Atteya , Mohamed Elhadidy

A pilot study revealing host-associated genetic signatures for source attribution of sporadic Campylobacter jejuni infection in Egypt.

Transboundary and emerging diseases

Avec: Nehal A Saif , José F Cobo-Díaz , Menattallah Elserafy , Iman El-Shiekh , Avelino Álvarez-Ordóñez , Shaimaa F Mouftah , Mohamed Elhadidy

A novel metabarcoding approach to investigate Fusarium species composition in soil and plant samples.

FEMS microbiology ecology

Avec: José F Cobo-Díaz , Riccardo Baroncelli , Gaétan Le Floch , Adeline Picot

Inter-facility characterization of bacteria in seafood processing plants: Exploring potential reservoirs of spoilage organisms and the resistome.

Heliyon

Avec: Karla Fabiola Corral-Jara , Sigurlaug Skírnisdóttir , Stephen Knobloch , Helgi Briem , José F Cobo-Díaz , Niccolò Carlino , Pauline Bergsten , Federica Armanini , Francesco Asnicar , Federica Pinto , Avelino Alvarez-Ordóñez , Nicola Segata , Viggó Þór Marteinsson

Evidence of virulence and antibiotic resistance genes from the microbiome mapping in minimally processed vegetables producing facilities.

Food research international (Ottawa, Ont.)

Avec: Vincenzo Valentino , Giuseppina Sequino , José F Cobo-Díaz , Avelino Álvarez-Ordóñez , Francesca De Filippis , Danilo Ercolini

Combined Metabarcoding and Co-occurrence Network Analysis to Profile the Bacterial, Fungal and

Frontiers in microbiology

Avec: José Francisco Cobo-Díaz , Riccardo Baroncelli , Gaétan Le Floch , Adeline Picot

Microbial colonization and resistome dynamics in food processing environments of a newly opened pork cutting industry during 1.5 years of activity.

Microbiome

Avec: José F Cobo-Díaz , Adrián Alvarez-Molina , Elena A Alexa , Calum J Walsh , Oscar Mencía-Ares , Paula Puente-Gómez , Eleni Likotrafiti , Paula Fernández-Gómez , Bernardo Prieto , Fiona Crispie , Lorena Ruiz , Montserrat González-Raurich , Mercedes López , Miguel Prieto , Paul Cotter , Avelino Alvarez-Ordóñez

Integration of genomics in surveillance and risk assessment for outbreak investigation.

EFSA journal. European Food Safety Authority

Avec: Vincenzo Pennone , José Francisco Cobo-Díaz , Miguel Prieto-Maradona , Avelino Álvarez-Ordóñez

Susceptibility and transcriptomic response to plasma-activated water of Listeria monocytogenes planktonic and sessile cells.

Food microbiology

Avec: Paula Fernández-Gómez , José F Cobo-Díaz , Marcia Oliveira , Montserrat González-Raurich , Avelino Alvarez-Ordóñez , Miguel Prieto , James L Walsh , Morten Sivertsvik , Estefanía Noriega-Fernández , Mercedes López

The detailed analysis of the microbiome and resistome of artisanal blue-veined cheeses provides evidence on sources and patterns of succession linked with quality and safety traits.

Microbiome

Avec: Elena A Alexa , José F Cobo-Díaz , Erica Renes , Tom F O Callaghan , Kieran Kilcawley , David Mannion , Iwona Skibinska , Lorena Ruiz , Abelardo Margolles , Paula Fernández-Gómez , Adrián Alvarez-Molina , Paula Puente-Gómez , Fiona Crispie , Mercedes López , Miguel Prieto , Paul D Cotter , Avelino Alvarez-Ordóñez

Genomic Insights into the Mobilome and Resistome of Sentinel Microorganisms Originating from Farms of Two Different Swine Production Systems.

Microbiology spectrum

Avec: Oscar Mencía-Ares , Maria Borowiak , Héctor Argüello , José Francisco Cobo-Díaz , Burkhard Malorny , Avelino Álvarez-Ordóñez , Ana Carvajal , Carlus Deneke

In-depth characterization of food and environmental microbiomes across different meat processing plants.

Microbiome

Avec: Coral Barcenilla , José F Cobo-Díaz , Alba Puente , Vincenzo Valentino , Francesca De Filippis , Danilo Ercolini , Niccolò Carlino , Federica Pinto , Nicola Segata , Miguel Prieto , Mercedes López , Avelino Alvarez-Ordóñez

Complete Genome Sequence of Sinorhizobium meliloti Strain AK21, a Salt-Tolerant Isolate from the Aral Sea Region.

Microbiology resource announcements

Avec: José I Jiménez-Zurdo , Francisco Martínez-Abarca , José F Cobo-Díaz , José A López-Contreras , Manuel Fernández-López , Nicolás Toro

Co-occurrence analysis reveal that biotic and abiotic factors influence soil fungistasis against Fusarium graminearum.

FEMS microbiology ecology

Avec: Fabienne Legrand , Wen Chen , José Francisco Cobo-Díaz , Adeline Picot , Gaétan Le Floch

Antimicrobial use and production system shape the fecal, environmental, and slurry resistomes of pig farms.

Microbiome

Avec: Oscar Mencía-Ares , Raúl Cabrera-Rubio , José Francisco Cobo-Díaz , Avelino Álvarez-Ordóñez , Manuel Gómez-García , Héctor Puente , Paul D Cotter , Fiona Crispie , Ana Carvajal , Pedro Rubio , Héctor Argüello

Unraveling the emergence and population diversity of Listeria monocytogenes in a newly built meat facility through whole genome sequencing.

International journal of food microbiology

Avec: Adrián Alvarez-Molina , José F Cobo-Díaz , Mercedes López , Miguel Prieto , María de Toro , Avelino Alvarez-Ordóñez

High-throughput sequencing reveals genetic determinants associated with antibiotic resistance in Campylobacter spp. from farm-to-fork.

PloS one

Avec: Shaimaa F Mouftah , José F Cobo-Díaz , Avelino Álvarez-Ordóñez , Menattallah Elserafy , Nehal A Saif , Asmaa Sadat , Ayman El-Shibiny , Mohamed Elhadidy

Selection of lactic acid bacteria as biopreservation agents and optimization of their mode of application for the control of Listeria monocytogenes in ready-to-eat cooked meat products.

International journal of food microbiology

Avec: Coral Barcenilla , Alba Puente , José F Cobo-Díaz , Elena-Alexandra Alexa , Enriqueta Garcia-Gutierrez , Paula M O'Connor , Paul D Cotter , Montserrat González-Raurich , Mercedes López , Miguel Prieto , Avelino Álvarez-Ordóñez

The background microbiota and sanitization agent drive the fate of Listeria monocytogenes in multispecies biofilms formed on a plasma-polymerized coating applied on stainless steel.

International journal of food microbiology

Avec: Paula Fernández-Gómez , Marcia Oliveira , José F Cobo-Díaz , Montserrat González-Raurich , Rodolfo Múgica-Vidal , Fernando Alba-Elías , Miguel Prieto , Avelino Alvarez-Ordóñez , Mercedes López

The resistome of the food chain: A One Health perspective.

Microbial biotechnology

Avec: Elena Fernández-Trapote , Marcia Oliveira , José F Cobo-Díaz , Avelino Alvarez-Ordóñez

Unexplored microbial diversity from 2,500 food metagenomes and links with the human microbiome.

Cell

Avec: Niccolò Carlino , Aitor Blanco-Míguez , Michal Punčochář , Claudia Mengoni , Federica Pinto , Alessia Tatti , Paolo Manghi , Federica Armanini , Michele Avagliano , Coral Barcenilla , Samuel Breselge , Raul Cabrera-Rubio , Inés Calvete-Torre , Mairéad Coakley , José F Cobo-Díaz , Francesca De Filippis , Hrituraj Dey , John Leech , Eline S Klaassens , Stephen Knobloch , Dominic O'Neil , Narciso M Quijada , Carlos Sabater , Sigurlaug Skírnisdóttir , Vincenzo Valentino , Liam Walsh , Auteur inconnu , Avelino Alvarez-Ordóñez , Francesco Asnicar , Gloria Fackelmann , Vitor Heidrich , Abelardo Margolles , Viggó Thór Marteinsson , Omar Rota Stabelli , Martin Wagner , Danilo Ercolini , Paul D Cotter , Nicola Segata , Edoardo Pasolli

Water Microbiota in Greenhouses With Soilless Cultures of Tomato by Metabarcoding and Culture-Dependent Approaches.

Frontiers in microbiology

Avec: Adeline Picot , José F Cobo-Díaz , Audrey Pawtowski , Christelle Donot , Fabienne Legrand , Gaétan Le Floch , Franck Déniel

Novel methods of microbiome analysis in the food industry.

International microbiology : the official journal of the Spanish Society for Microbiology

Avec: Carlos Sabater , José F Cobo-Díaz , Avelino Álvarez-Ordóñez , Patricia Ruas-Madiedo , Lorena Ruiz , Abelardo Margolles

Stress resistance associated with multi-host transmission and enhanced biofilm formation at 42 °C among hyper-aerotolerant generalist Campylobacter jejuni.

Food microbiology

Avec: Shaimaa F Mouftah , José F Cobo-Díaz , Avelino Álvarez-Ordóñez , Ahmed Mousa , Jessica K Calland , Ben Pascoe , Samuel K Sheppard , Mohamed Elhadidy

Influence of Maize Residues in Shaping Soil Microbiota and Fusarium spp. Communities.

Microbial ecology

Avec: José F Cobo-Díaz , Fabienne Legrand , Gaétan Le Floch , Adeline Picot

Improved sampling and DNA extraction procedures for microbiome analysis in food-processing environments.

Nature protocols

Avec: Coral Barcenilla , José F Cobo-Díaz , Francesca De Filippis , Vincenzo Valentino , Raul Cabrera Rubio , Dominic O'Neil , Lisa Mahler de Sanchez , Federica Armanini , Niccolò Carlino , Aitor Blanco-Míguez , Federica Pinto , Inés Calvete-Torre , Carlos Sabater , Susana Delgado , Patricia Ruas-Madiedo , Narciso M Quijada , Monika Dzieciol , Sigurlaug Skírnisdóttir , Stephen Knobloch , Alba Puente , Mercedes López , Miguel Prieto , Viggó Thór Marteinsson , Martin Wagner , Abelardo Margolles , Nicola Segata , Paul D Cotter , Danilo Ercolini , Avelino Alvarez-Ordóñez

Sequencing-based analysis of the microbiomes of Spanish food processing facilities reveals environment-specific variation in the dominant taxa and antibiotic resistance genes.

Food research international (Ottawa, Ont.)

Avec: Adrián Alvarez-Molina , José F Cobo-Díaz , Elena A Alexa , Fiona Crispie , Miguel Prieto , Mercedes López , Paul D Cotter , Avelino Alvarez-Ordóñez

High pressure processing at the early stages of ripening enhances the safety and quality of dry fermented sausages elaborated with or without starter culture.

Food research international (Ottawa, Ont.)

Avec: Miroslav Dučić , Coral Barcenilla , José F Cobo-Díaz , Mercedes López , Avelino Álvarez-Ordóñez , Miguel Prieto

Bacterial inoculation of Quercus pyrenaica trees alters co-occurrence patterns but not the composition of the rhizosphere bacteriome in wild conditions.

Environmental microbiology

Avec: Ana V Lasa , Antonio J Fernández-González , Pablo J Villadas , José F Cobo-Díaz , M Fernández-López

Genome evolution and transcriptome plasticity is associated with adaptation to monocot and dicot plants in Colletotrichum fungi.

GigaScience

Avec: Riccardo Baroncelli , José F Cobo-Díaz , Tiziano Benocci , Mao Peng , Evy Battaglia , Sajeet Haridas , William Andreopoulos , Kurt LaButti , Jasmyn Pangilinan , Anna Lipzen , Maxim Koriabine , Diane Bauer , Gaetan Le Floch , Miia R Mäkelä , Elodie Drula , Bernard Henrissat , Igor V Grigoriev , Jo Anne Crouch , Ronald P de Vries , Serenella A Sukno , Michael R Thon

Comparative Study of

Biology

Avec: Adoración Barros-Rodríguez , Pamela Pacheco , María Peñas-Corte , Antonio J Fernández-González , José F Cobo-Díaz , Yasmira Enrique-Cruz , Maximino Manzanera

Réseau de co-auteurs

Avelino Alvarez-Ordóñez 12 collaborations

Avelino Álvarez-Ordóñez 11 collaborations

Mercedes López 10 collaborations

Miguel Prieto 10 collaborations

Paul D Cotter 7 collaborations

Coral Barcenilla 6 collaborations

José Francisco Cobo-Díaz 6 collaborations

Shaimaa F Mouftah 5 collaborations

Mohamed Elhadidy 5 collaborations

Francesca De Filippis 5 collaborations

Vincenzo Valentino 5 collaborations

Niccolò Carlino 5 collaborations

Abelardo Margolles 5 collaborations

Nicola Segata 5 collaborations

Danilo Ercolini 5 collaborations

Gaétan Le Floch 5 collaborations

Adeline Picot 5 collaborations

Carlos Sabater 4 collaborations

Federica Pinto 4 collaborations

Adrián Alvarez-Molina 4 collaborations

Paula Fernández-Gómez 4 collaborations

Fiona Crispie 4 collaborations

Montserrat González-Raurich 4 collaborations

Inés Calvete-Torre 3 collaborations

Patricia Ruas-Madiedo 3 collaborations

Martin Wagner 3 collaborations

Riccardo Baroncelli 3 collaborations

Sigurlaug Skírnisdóttir 3 collaborations

Stephen Knobloch 3 collaborations

Federica Armanini 3 collaborations

Elena A Alexa 3 collaborations

Oscar Mencía-Ares 3 collaborations

Lorena Ruiz 3 collaborations

Marcia Oliveira 3 collaborations

Alba Puente 3 collaborations

Fabienne Legrand 3 collaborations

Nehal Adel Abdelsalam 2 collaborations

Ahmed H Shata 2 collaborations

Reham Atteya 2 collaborations

Raul Cabrera-Rubio 2 collaborations

Giuseppina Sequino 2 collaborations

Edoardo Pasolli 2 collaborations

Elena-Alexandra Alexa 2 collaborations

Nehal A Saif 2 collaborations

Menattallah Elserafy 2 collaborations

Francesco Asnicar 2 collaborations

Paula Puente-Gómez 2 collaborations

Héctor Argüello 2 collaborations

Ana Carvajal 2 collaborations

Aitor Blanco-Míguez 2 collaborations

Dominic O'Neil 2 collaborations

Narciso M Quijada 2 collaborations

Viggó Thór Marteinsson 2 collaborations

Antonio J Fernández-González 2 collaborations

Salma Salem 1 collaboration

Dina Osama 1 collaboration

Min Yap 1 collaboration

Narciso Martín Quijada 1 collaboration

Naomi Oyenuga 1 collaboration

Shahira A ElBanna 1 collaboration

Sherine M Shawky 1 collaboration

Iman El-Shiekh 1 collaboration

Karla Fabiola Corral-Jara 1 collaboration

Helgi Briem 1 collaboration

Pauline Bergsten 1 collaboration

Viggó Þór Marteinsson 1 collaboration

Calum J Walsh 1 collaboration

Eleni Likotrafiti 1 collaboration

Bernardo Prieto 1 collaboration

Paul Cotter 1 collaboration

Vincenzo Pennone 1 collaboration

Miguel Prieto-Maradona 1 collaboration

James L Walsh 1 collaboration

Morten Sivertsvik 1 collaboration

Estefanía Noriega-Fernández 1 collaboration

Erica Renes 1 collaboration

Tom F O Callaghan 1 collaboration

Kieran Kilcawley 1 collaboration

David Mannion 1 collaboration

Iwona Skibinska 1 collaboration

Maria Borowiak 1 collaboration

Burkhard Malorny 1 collaboration

Carlus Deneke 1 collaboration

José I Jiménez-Zurdo 1 collaboration

Francisco Martínez-Abarca 1 collaboration

José A López-Contreras 1 collaboration

Manuel Fernández-López 1 collaboration

Nicolás Toro 1 collaboration

Wen Chen 1 collaboration

Raúl Cabrera-Rubio 1 collaboration

Manuel Gómez-García 1 collaboration

Héctor Puente 1 collaboration

Pedro Rubio 1 collaboration

María de Toro 1 collaboration

Asmaa Sadat 1 collaboration

Ayman El-Shibiny 1 collaboration

Enriqueta Garcia-Gutierrez 1 collaboration

Paula M O'Connor 1 collaboration

Rodolfo Múgica-Vidal 1 collaboration

Fernando Alba-Elías 1 collaboration

Elena Fernández-Trapote 1 collaboration

Michal Punčochář 1 collaboration

Claudia Mengoni 1 collaboration

Alessia Tatti 1 collaboration

Paolo Manghi 1 collaboration

Michele Avagliano 1 collaboration

Samuel Breselge 1 collaboration

Mairéad Coakley 1 collaboration

Hrituraj Dey 1 collaboration

John Leech 1 collaboration

Eline S Klaassens 1 collaboration

Liam Walsh 1 collaboration

None None 1 collaboration

Gloria Fackelmann 1 collaboration

Vitor Heidrich 1 collaboration

Omar Rota Stabelli 1 collaboration

Audrey Pawtowski 1 collaboration

Christelle Donot 1 collaboration

Franck Déniel 1 collaboration

Ahmed Mousa 1 collaboration

Jessica K Calland 1 collaboration

Ben Pascoe 1 collaboration

Samuel K Sheppard 1 collaboration

Raul Cabrera Rubio 1 collaboration

Lisa Mahler de Sanchez 1 collaboration

Susana Delgado 1 collaboration

Monika Dzieciol 1 collaboration

Miroslav Dučić 1 collaboration

Ana V Lasa 1 collaboration

Pablo J Villadas 1 collaboration

M Fernández-López 1 collaboration

Tiziano Benocci 1 collaboration

Mao Peng 1 collaboration

Evy Battaglia 1 collaboration

Sajeet Haridas 1 collaboration

William Andreopoulos 1 collaboration

Kurt LaButti 1 collaboration

Jasmyn Pangilinan 1 collaboration

Anna Lipzen 1 collaboration

Maxim Koriabine 1 collaboration

Diane Bauer 1 collaboration

Gaetan Le Floch 1 collaboration

Miia R Mäkelä 1 collaboration

Elodie Drula 1 collaboration

Bernard Henrissat 1 collaboration

Igor V Grigoriev 1 collaboration

Jo Anne Crouch 1 collaboration

Ronald P de Vries 1 collaboration

Serenella A Sukno 1 collaboration

Michael R Thon 1 collaboration

Adoración Barros-Rodríguez 1 collaboration

Pamela Pacheco 1 collaboration

María Peñas-Corte 1 collaboration

Yasmira Enrique-Cruz 1 collaboration

Maximino Manzanera 1 collaboration