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FISABIO-Public Health Sequencing and Bioinformatics Service

Publications

  1. Cocco N, Llabrés M, Reyes-Prieto M, Simeoni M. MetNet: A two-level approach to reconstructing and comparing metabolic networks. PLoS One. 2021 Feb 12;16(2):e0246962. PMID: 33577575.
  2. Amerikanou C, Kanoni S, Kaliora AC, Barone A, Bjelan M, D’Auria G, Gioxari A, Gosalbes MJ, Mouchti S, Stathopoulou MG, Soriano B, Stojanoski S, Banerjee R, Halabalaki M, Mikropoulou EV, Kannt A, Lamont J, Llorens C, Marascio F, Marascio M, Roig FJ, Smyrnioudis I, Varlamis I, Visvikis-Siest S, Vukic M, Milic N, Medic-Stojanoska M, Cesarini L, Campolo J, Gastaldelli A, Deloukas P, Trivella MG, Francino MP, Dedoussis GV. Effect of Mastiha supplementation on NAFLD: The MAST4HEALTH Randomised, Controlled Trial. Mol Nutr Food Res. 2021 Feb 24:e2001178. PMID: 33629536.
  3. Valiente-Mullor C, Beamud B, Ansari I, Francés-Cuesta C, García-González N, Mejía L, Ruiz-Hueso P, González-Candelas F. One is not enough: On the effects of reference genome for the mapping and subsequent analyses of short-reads. PLoS Comput Biol. 2021 Jan 27;17(1):e1008678. Epub ahead of print. PMID: 33503026.
  4. Alm E, Broberg EK, Connor T, Hodcroft EB, Komissarov AB, Maurer-Stroh S, Melidou A, Neher RA, O’Toole Á, Pereyaslov D; WHO European Region sequencing laboratories and GISAID EpiCoV group; WHO European Region sequencing laboratories and GISAID EpiCoV group*. Geographical and temporal distribution of SARS-CoV-2 clades in the WHO European Region, January to June 2020. Euro Surveill. 2020 Aug;25(32):2001410. PMID: 32794443.
  5. Francés-Cuesta C, Sánchez-Hellín V, Gomila B, González-Candelas F. Is there a widespread clone of Serratia marcescens producing outbreaks worldwide? J Hosp Infect. 2020 Nov 9:S0195-6701(20)30515-6 Epub ahead of print. PMID: 33181279.
  6. Sainz T, Gosalbes MJ, Talavera-Rodríguez A, Jimenez-Hernandez N, Prieto L, Escosa L, Guillén S, Ramos JT, Muñoz-Fernández MÁ, Moya A, Navarro ML, Mellado MJ, Serrano-Villar S. Effect of a Nutritional Intervention on the Intestinal Microbiota of Vertically HIV-Infected Children: The Pediabiota Study. Nutrients. 2020 Jul 16;12(7):2112.  PMID: 32708743.
  7. Reyes-Prieto M, Vargas-Chávez C, Llabrés M, Palmer P, Latorre A, Moya A. An update on the Symbiotic Genomes Database (SymGenDB): a collection of metadata, genomic, genetic and protein sequences, orthologs and metabolic networks of symbiotic organisms. Database (Oxford). 2020 Jan 1;2020:baz160. PMID: 32055857.
  8. Morales-Roselló J, García-Giménez JL, Martinez Priego L, González-Rodríguez D, Mena-Mollá S, Maquieira Catalá A, Loscalzo G, Buongiorno S, Jakaite V, Cañada Martínez AJ, Perales Marín A. MicroRNA-148b-3p and MicroRNA-25-3p Are Overexpressed in Fetuses with Late-Onset Fetal Growth Restriction. Fetal Diagn Ther. 2020 Jun 25:1-10. PMID: 32585676
  9. Moreno-Mesonero L, Hortelano I, Moreno Y, Ferrús MA. Evidence of viable Helicobacter pylori and other bacteria of public health interest associated with free-living amoebae in lettuce samples by next generation sequencing and other molecular techniques. Int J Food Microbiol. 2020 Apr 2;318:108477. PMID: 31855786
  10. Aguirre-Garrido JF, Martínez-Abarca F, Montiel-Lugo D, Hernández-Soto LM, Ramírez-Saad H. Metagenomic analyses uncover the differential effect of azide treatment on bacterial community structure by enriching a specific Cyanobacteria present in a saline-alkaline environmental sample. Int Microbiol. 2020 Jan 14. PubMed PMID: 31933014.
  11. Reyes-Prieto M, Vargas-Chávez C, Llabrés M, Palmer P, Latorre A, Moya A. Anupdate on the Symbiotic Genomes Database (SymGenDB): a collection of metadata, genomic, genetic and protein sequences, orthologs and metabolic networks of symbiotic organisms. Database (Oxford). 2020 Jan 1;2020. pii: baz160. PMID: 32055857.
  12. Ríos N, Casanova A, Hermida M, Pardo BG, Martínez P, Bouza C, García G. Population Genomics in Rhamdia quelen (Heptapteridae, Siluriformes) Reveals Deep Divergence and Adaptation in the Neotropical Region. Genes (Basel). 2020 Jan 17;11(1). pii: E109. PMID: 31963477
  13. Carda-Diéguez M, Cárdenas N, Aparicio M, Beltrán D, Rodríguez JM, Mira A. Variations in Vaginal, Penile, and Oral Microbiota After Sexual Intercourse: A Case Report. Front Med (Lausanne). 2019 Aug 7;6:178. eCollection 2019. Erratum in: Front Med (Lausanne). 2020 Jan 09;6:294. PMID: 31440511
  14. Quagliariello A, Di Paola M, De Fanti S, Gnecchi-Ruscone GA, Martinez-Priego L, Pérez-Villaroya D, Sherpa MG, Sherpa PT, Marinelli G, Natali L, Di Marcello M, Peluzzi D, Di Cosimo P,  D’Auria G, Pettener D, Sazzini M, Luiselli D, De Filippo C. Gut microbiota composition in Himalayan and Andean populations and its relationship with diet, lifestyle and adaptation to the high-altitude environment. J Anthropol Sci. 2019 Nov 25;97. doi: 10.4436/JASS.97007. PMID: 31782749
  15. Diéguez AL, Balboa S, Romalde JL. Halomonas borealis sp. nov. and Halomonas niordiana sp. nov., two new species isolated from seawater. Syst Appl Microbiol. 2020 Jan;43(1):126040. PMID: 31784208
  16. Boix-Amorós A, Puente-Sánchez F, du Toit E, Linderborg KM, Zhang Y, Yang B, Salminen S, Isolauri E, Tamames J, Mira A, Collado MC. Mycobiome Profiles in Breast Milk from Healthy Women Depend on Mode of Delivery, Geographic Location, and Interaction with Bacteria. Appl Environ Microbiol. 2019 Apr 18;85(9). pii:e02994-18. PMID: 30824446.
  17. Marin C, D’Auria G, Martínez-Priego L, Marco-Jiménez F. Draft Genome Sequences of 12 Monophasic Salmonella enterica subsp. enterica Serotype Typhimurium 1,4,[5],12:i:- Strains Isolated from Wild Griffon Vultures in Eastern Spain. Microbiol Resour Announc. 2019 Oct 17;8(42). PMID: 31624159.
  18. Mira Miralles M, Maestre-Carballa L, Lluesma-Gomez M, Martinez-Garcia M. High-Throughput 16S rRNA Sequencing to Assess Potentially Active Bacteria and Foodborne Pathogens: A Case Example in Ready-to-Eat Food. Foods. 2019 Oct 11;8(10). pii: E480. PMID:31614586
  19. Cortés-Martín A, Romo-Vaquero M, García-Mantrana I, Rodríguez-Varela A, Collado MC, Espín JC, Selma MV. Urolithin Metabotypes can Anticipate the Different Restoration of the Gut Microbiota and Anthropometric Profiles during the First Year Postpartum. Nutrients. 2019 Sep 3;11(9):2079. PMID: 31484413
  20. Sanguinetti E, Guzzardi MA, Tripodi M, Panetta D, Selma-Royo M, Zega A, Telleschi M, Collado MC, Iozzo P. Microbiota signatures relating to reduced memory and exploratory behaviour in the offspring of overweight mothers in a murine model. Sci Rep. 2019 Aug 30;9(1):12609. PMID: 31471539.
  21. Murall CL, Rahmoun M, Selinger C, Baldellou M, Bernat C, Bonneau M, Boué V, Buisson M, Christophe G, D’Auria G, Taroni F, Foulongne V, Froissart R, Graf C, Grasset S, Groc S, Hirtz C, Jaussent A, Lajoie J, Lorcy F, Picot E, Picot MC, Ravel J, Reynes J, Rousset T, Seddiki A, Teirlinck M, Tribout V, Tuaillon É, Waterboer T, Jacobs N, Bravo IG, Segondy M, Boulle N, Alizon S. Natural history, dynamics, and ecology of human papillomaviruses in genital infections of young women: protocol of the PAPCLEAR cohort study. BMJ Open. 2019 Jun 11;9(6):e025129. PMID: 31189673.
  22. Laitinen K, Mokkala K. Overall Dietary Quality Relates to Gut Microbiota Diversity and Abundance. Int J Mol Sci. 2019 Apr 13;20(8). pii: E1835. PMID: 31013927
  23. Hermansson H, Kumar H, Collado MC, Salminen S, Isolauri E, Rautava S. Breast Milk Microbiota Is Shaped by Mode of Delivery and Intrapartum Antibiotic Exposure. Front Nutr. 2019 Feb 4;6:4. eCollection 2019. PMID: 30778389.
  24. Collado MC, Katila MK, Vuorela NM, Saarenpää-Heikkilä O, Salminen S, Isolauri E. Dysbiosis in Snoring Children: An Interlink to Comorbidities? J Pediatr Gastroenterol Nutr. 2019 Feb;68(2):272-277. PMID: 30289820.
  25. Džunková M, Moya A, Chen X, Kelly C, D’Auria G. Detection of mixed-strain infections by FACS and ultra-low input genome sequencing. Gut Microbes. 2018 Oct 5:1-5. PubMed PMID: 30289342.
  26. Raimondi S, Luciani R, Sirangelo TM, Amaretti A, Leonardi A, Ulrici A, Foca G, D’Auria G, Moya A, Zuliani V, Seibert TM, Søltoft-Jensen J, Rossi M. Microbiota of sliced cooked ham packaged in modified atmosphere throughout the shelf life: Microbiota of sliced cooked ham in MAP. Int J Food Microbiol. 2018 PMID: 30268907.
  27. Dinleyici EC, Martínez-Martínez D, Kara A, Karbuz A, Dalgic N, Metin O, Yazar AS, Guven S, Kurugol Z, Turel O, Kucukkoc M, Yasa O, Eren M, Ozen M, Martí JM, P Garay C, Vandenplas Y, Moya A. Time Series Analysis of the Microbiota of Children Suffering From Acute Infectious Diarrhea and Their Recovery After Treatment. Front Microbiol. 2018 Jun 12;9:1230. PMID: 29946306
  28. Award better communication, XXII Congress SEIMC 2018 by Sociedad Española de Enfermedades Infecciosas y Microbiología Clínica, SEIMC, Bilbao, Mayo 2018. “Incorporación de la secuenciación masiva de genomas completos a la vigilancia de gripe.” X. López Labrador, L.Cano, M.D.M. Mosquera, P. de Molina, R. Vendrell, G. D’Auria, L. Martinez Priego, J. Diez Domingo, M. Jané, N. Torner, A.I. Martinez, J. Vila Estape, M.A. Marcos Maeso.
  29. Greses S, Zamorano-López N, Borrás L, Ferrer J, Seco A, Aguado D. Effect of long residence time and high temperature over anaerobic biodegradation of Scenedesmus microalgae grown in wastewater. J Environ Manage. 2018 Apr 27;218:425-434. PMID: 29709811.
  30. Zamorano-López N, Moñino P, Borrás L, Aguado D, Barat R, Ferrer J, Seco A. Influence of food waste addition over microbial communities in an Anaerobic Membrane Bioreactor plant treating urban wastewater. J Environ Manage. 2018 Jul 1;217:788-796. PMID: 29660704
  31. D’Auria G., Džunková M., Peris-Bondia F. and Moya A. 2017. Diversity of metagenomics studies – dissecting microbiomes. pp. 27 – 32 In CIESM Monograph 49 [F. Briand ed.] Searching for Bacterial Pathogens in the Digital Ocean, 158 p., CIESM Publisher, Monaco and Paris.
  32. Sanguinetti E, Collado MC, Marrachelli VG, Monleon D, Selma-Royo M, Pardo-Tendero MM, Burchielli S, Iozzo P. Microbiome-metabolome signatures in mice genetically prone to develop dementia, fed a normal or fatty diet. Sci Rep. 2018 Mar 20;8(1):4907. PMID: 29559675.
  33. D’Auria G, Artacho A, Rojas RA, Bautista JS, Méndez R, Gamboa MT, Gamboa JR, Gómez-Cruz R. Metagenomics of Bacterial Diversity in Villa Luz Caves with SulfurWater Springs. Genes (Basel). 2018 Jan 22;9(1) PMID: 29361802
  34. Del Campo-Moreno R, Alarcón-Cavero T, D’Auria G, Delgado-Palacio S, Ferrer-Martínez M. Microbiota and Human Health: characterization techniques and transference. Enferm Infecc Microbiol Clin. 2018 Apr;36(4):241-245. PMID: 28372875
  35. Villar-García J, Güerri-Fernández R, Moya A, González A, Hernández JJ, Lerma E, Guelar A, Sorli L, Horcajada JP, Artacho A, D’Auria G, Knobel H. Impact of probiotic Saccharomyces boulardii on the gut microbiome composition in HIV-treated patients: A double-blind, randomised, placebo-controlled trial. PLoS One. 2017 Apr 7;12(4):e0173802.
  36. Moñino P., Zamorano-López N., Aguado D., Barat R., Borrás L., Seco A. and Ferrer J.. Effect of treating OFMSW and wastewater in SAnMBR technology over microbial community. 3rd IWA Specialized International Conference Ecotechnologies for Wastewater Treatment (2016) Jun 27-30; Cambridge, UK
  37. Alarcón Cavero T, D’Auria G, Delgado Palacio S, Del Campo Moreno R, Ferrer Martínez M, Microbiota. 2016 59. Del Campo Moreno R (coordinadora). Procedimientos en Microbiología Clínica. Cercenado Mansilla E, Cantón Moreno R (editores). Sociedad Española de Enfermedades Infecciosas y Microbiología Clínica (SEIMC). 2016. [PDF]
  38. Quagliariello A, Aloisio I, Bozzi Cionci N, Luiselli D, D’Auria G, Martinez-Priego L, Pérez-Villarroya D, Langerholc T, Primec M, Micetic-Turk D, Di Gioia D. Effect of Bifidobacterium breve on the Intestinal Microbiota of Coeliac Children on a Gluten Free Diet: A Pilot Study. Nutrients. 2016 Oct 22;8(10). pii: E660. PubMed PMID: 27782071
  39. Pérez-Lago L, Martínez-Lirola M, García S, Herranz M, Mokrousov I, Comas I, Martínez L, Bouza E, García de Viedma D. Urgent implementation in a hospital setting of a strategy to rule out secondary cases caused by imported XDR tuberculosis at diagnosis. J Clin Microbiol. 2016 Sep 28. pii: JCM.01718-16. PubMed PMID: 27682128.
  40. Albuquerque L, Kowalewicz-Kulbat M, Drzewiecka D, Staczek P, D’Auria G, Rosselló-Móra R, da Costa MS. Halorhabdus rudnickae sp. nov., a halophilic archaeon isolated from a salt mine borehole in Poland. Syst Appl Microbiol. 2015 Dec 18. pii: S0723-2020(15)00185-X. doi: 10.1016/j.syapm.2015.12.004. PubMed PMID: 26749115.
  41. D’Auria G, Torrents E, Luquin M, Comas I, Julián E. Draft Genome Sequence of Mycobacterium brumae ATCC 51384. Genome Announc. 2016 Apr 28;4(2). pii: e00237-16. doi: 10.1128/genomeA.00237-16. PubMed PMID: 27125480.