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Publications

Research Papers

  • Cecilio Valadez-Cano, Roberto Olivares-Hernández, Osbaldo Resendis-Antonio, Alexander DeLuna and Luis Delaye (2017) Natural selection drove metabolic specialization of the chromatophore in Paulinella chromatophora. BMC Evolutionary Biology. DOI: 10.1186/s12862-017-0947-6. Link.
  • Pérez-Zamorano B, Vallebueno-Estrada M, Martínez González J, García Cook A, Montiel R, Vielle-Calzada JP and Delaye L (2017) Organellar genomes from a ∼5,000 years old archaeological maize sample are closely related to NB genotype. Genome Biology and Evolution. Mar 17. doi: 10.1093/gbe/evx048. Link.
  • Rendón-Anaya M, Montero-Vargas JM, Saburido-Álvarez S, Vlasova A, Capella-Gutierrez S, Ordaz-Ortiz JJ, Aguilar OM, Vianello-Brondani RP, Santalla M, Delaye L, Gabaldón T, Gepts P, Winkler R, Guigó R, Delgado-Salinas A, Herrera-Estrella A. (2017) Genomic history of the origin and domestication of common bean unveils its closest sister species. Genome Biol. Mar 29;18(1):60. doi: 10.1186/s13059-017-1190-6. Link.
  • Paulina Guzmán-Guzmán, Mario Iván Alemán-Duarte, Luis Delaye, Alfredo Herrera-Estrella and Vianey Olmedo-MonfilEmail (2017) Identification of effector-like proteins in Trichoderma spp. and role of a hydrophobin in the plant-fungus interaction and mycoparasitism. BMC GeneticsBMC series – open, inclusive and trusted201718:16. DOI: 10.1186/s12863-017-0481-y. Link.
  • Diana Ascencio, Soledad Ochoa,  Luis Delaye and Alexander DeLuna (2017) Increased rates of protein evolution and asymmetric deceleration after the whole-genome duplication in yeasts. BMC Evolutionary Biology | DOI: 10.1186/s12862-017-0895-1. Link.
  • Maria D. Rodríguez-Torres, Africa Islas-Robles,  Ismael Hernandez-Gonzalez,  Zulema Gomez Lunar,  Luis J. Delaye,  Valeria Souza, Michael Travisano and  Gabriela Olmedo-Alvarez (2017) Phenotypic microdiversity and phylogenetic signal analysis of traits related to social interaction in Bacillus spp. from sediment communities. Front. Microbiol. | doi: 10.3389/fmicb.2017.00029. Link.
  • Obed Ramírez-Sánchez, Paulino Pérez-Rodríguez, Luis Delaye, Axel Tiessen, (2016) Plant Proteins Are Smaller Because They Are Encoded by Fewer Exons than Animal Proteins. Genomics Proteomics Bioinformatics 14:357–370. http://dx.doi.org/10.1016/j.gpb.2016.06.003. Link.
  • Delaye L, Valadez-Cano C, Pérez-Zamorano B. How Really Ancient Is Paulinella Chromatophora?. PLOS Currents Tree of Life. 2016 Mar 15 . Edition 1. doi: 10.1371/currents.tol.e68a099364bb1a1e129a17b4e06b0c6b. Link.
  • Vlasova, A., et al. (2016). Genome and transcriptome analysis of the Mesoamerican common bean and the role of gene duplications in establishing tissue and temporal specialization of genes. Genome Biology, 2016; 17 (1) DOI: 10.1186/s13059-016-0883-6. Link.
  • Schmoll M. et al. (2016) The Genomes of Three Uneven Siblings: Footprints of the Lifestyles of Three Trichoderma Species. Microbiol. Mol. Biol. Rev. vol. 80 no. 1 pp. 205-327. doi: 10.1128/MMBR.00040-15. Link.
  • Ramírez-Puebla ST, Servín-Garcidueñas LE, Ormeño-Orrillo E, Vera-Ponce de León A, Rosenblueth M, Delaye L, Martínez J, Martínez-Romero E. (2015) Species in Wolbachia? Proposal for the designation of 'Candidatus Wolbachia bourtzisii', 'Candidatus Wolbachia onchocercicola', 'Candidatus Wolbachia blaxteri', 'Candidatus Wolbachia brugii', 'Candidatus Wolbachia taylori', 'Candidatus Wolbachia collembolicola' and 'Candidatus Wolbachia multihospitum' for the different species within Wolbachia supergroups. Syst Appl Microbiol. Jul 2. pii: S0723-2020(15)00087-9. doi: 10.1016/j.syapm.2015.05.005. Link.
  • Álvarez-Canales G, Arellano-Álvarez G, González-Domenech CM, de la Cruz F, Moya A, Delaye L. (2015) Identification of Xenologs and Their Characteristic Low Expression Levels in the Cyanobacterium Synechococcus elongatus. J Mol Evol. 10.1007/s00239-015-9684-x. Link.
  • David J. Martínez-Cano, Mariana Reyes-Prieto, Esperanza Martínez-Romero, Laila P. Partida-Martínez, Amparo Latorre, Andrés Moya and Luis Delaye (2015) Evolution of small prokaryotic genomes. Front. Microbiol., 06 January 2015 | doi: 10.3389/fmicb.2014.00742. Link.
  • Encinas D, Garcillán-Barcia MP, Santos-Merino M, Delaye L, Moya A, de la Cruz F. (2014) Plasmid conjugation from proteobacteria as evidence for the origin of xenologous genes in cyanobacteria. J Bacteriol. Apr;196(8):1551-1559. Link.
  • Daniel Cerqueda-García, León P Martínez-Castilla, Luisa I Falcón and Luis Delaye (2013) Metabolic analysis of Chlorobium chlorochromatii CaD3 reveals clues of the symbiosis in ‘Chlorochromatium aggregatum’. ISMEJ. Link.
  • María Velasco A, Becerra A, Hernández-Morales R, Delaye L, Jiménez-Corona ME, Ponce-de-Leon S, Lazcano A (2013) Low complexity regions (LCRs) contribute to the hypervariability of the HIV-1 gp120 protein. J Theor Biol. Dec 7;338:80-6. Link.
  • Delaye L, Garcia-Guzman G, Heil M (2013) Endophytes versus biotrophic and necrotrophic pathogens - are fungal lifestyles evolutionarily stable traits? Fungal Diversity. Link.
  • Rendón-Anaya M, Delaye L, Possani LD, Herrera-Estrella A (2012) Global Transcriptome Analysis of the ScorpionCentruroides noxius: New Toxin Families and Evolutionary Insights from an Ancestral Scorpion Species. PLoS ONE, 7(8): e43331. Link.
  • Tiessen A, Pérez-Rodríguez P, Delaye-Arredondo LJ. (2012) Mathematical modeling and comparison of protein size distribution in different plant, animal, fungal and microbial species reveals a negative correlation between protein size and protein number, thus providing insight into the evolution of proteomes. BMC Res Notes, Feb 1;5:85. Link.
  • Delaye L and Moya A (2011) Abundance and distribution of the highly iterated palindrome 1 (HIP1) among prokaryotes. Mob Genet Elements, 1(3):159-168. Link.
  • Faure E, Delaye L, Tribolo S, Levasseur A, Seligmann H, Barthelemy R-M. (2011) Probable presence of an ubiquitous cryptic mitochondrial gene on the antisense strand of the cytochrome oxydase I gene. Biology Direct 2011, 6:56. Link.
  • Luis Delaye, Carmen M Gonzalez-Domenech, Maria P Garcillan-Barcia, Juli Pereto, Fernando de la Cruz and Andres Moya (2011) Blueprint for a minimal photoautotrophic cell: conserved and variable genes in Synechococcus elongatus PCC 7942. BMC Genomics. 12:25. Link.
  • Delaye L, Moya A. (2010) Evolution of reduced prokaryotic genomes and the minimal cell concept: variations on a theme. Bioessays. 32:281-287. Link.
  • Delaye, L., Gil, R., Pereto, L., Latorre, A., Moya, A. (2010) Life with a few genes: a survey on naturally evolved reduced genomes. Open Evolution Journal.4:12-22. Link.
  • Cortez, D., Delaye, L., Lazcano, A., Becerra, A. (2009) Composition-based methods to identify horizontal gene transfer. Methods Mol Biol. 532:215-225. Link.
  • Rosario Gil, Eugeni Belda, María José Gosalbes, Luis Delaye, Agnès Vallier, Carole Vincent-Monégat, Abdelaziz Heddi, Francisco J. Silva, Andrés Moya and Amparo Latorre. (2008) Massive presence of Insertion Sequences in the genome of SOPE, the primary endosymbiont of the rice weevil Sitophilus oryzae. International Microbiology 11:41-48. Link.
  • Delaye, L., DeLuna, A., Lazcano, A., and Becerra, A. (2008) The origin of a novel gene through overprinting in Escherichia coli. BMC Evolutionary Biology 8:31. Link.
  • Becerra, A., Delaye, L., Lazcano, A. and Orgel, L. (2007) Protein disulfide oxidoreductases and the evolution of thermophily: was the last common ancestor a heat-loving microbe? Journal of Molecular Evolution 65: 296-303. Link.
  • Becerra, A., Delaye, L., Islas, A., and Lazcano A. (2007) Very early stages of biological evolution related to the nature of the last common ancestor of the three major cell domains. Annual Review of Ecology, Evolution  and Systematics 38: 361-379. Link.
  • Delaye L, Becerra A, Orgel L, and Lazcano A. (2007) Molecular evolution of peptide methionine sulfoxide reductases (MsrA and MsrB): on the early development of a mechanism that protects against oxidative damage. Journal of Molecular Evolution. 64:15-32. Link.
  • Martinez-Perez F, Duran-Gutierrez D, Delaye L, Becerra A, Aguilar G, Zinker S. (2007) Loss of DNA: a plausible molecular level explanation for crustacean neuropeptide gene evolution. Peptides. 28:76-82. Link.
  • Delaye L, Becerra A, and Lazcano A. (2005) The Last Common Ancestor: what's in a name? Origin of Life and Evolution of the Biosphere. 35: 537-554. Link.
  • Delaye L and Lazcano A. (2004) Prebiological evolution and the physics of the origin of life. Physics of Life Reviews, 2: 47-64. Link.
  • Islas S, Velasco AM, Becerra A, Delaye L and Lazcano A. (2003) Hyperthermophily and the origin and earliest evolution of life. International Microbiology. 6: 87-94. Link.

Book Chapters

  • Emmanuel Ávila de Dios, Octavio Martinez, Luis Delaye Arredondo y June Simpson Williamson (2013). Transcriptome analysis and tissue specific expression in Agave tequilana, A. striata and A. victoriae-reginae. Bioveg 2013. ISBN: 978-959-16-2045-3.
  • Luis Delaye. Cenancestor; Common Ancestor; Last Universal Common Ancestor. In: Enciclopedya of Astrobiology. Muriel Gargaud (Editor in Chief), Ricardo Amils, José Cernicharo Quintanilla, Henderson James (Jim) Cleaves, William M. Irvine, Daniele L. Pinti and Michel Viso (Eds.) Springer-Verlag Berlin Heidelberg 2011. pages: C:279,351; L:906-909. Link.
  • Lazcano, A., Becerra, A. and Delaye, L. Alarmones. In Margulis, L. Asikainen, C.A. and Krumbie, W.E. (eds) Chimeras and Consciousness: Evolution of the Sensory Self. MIT (2011). Link.
  • Neef, Alexander, Delaye, Luis, López-Sánchez, María José, Peretó, Juli, Latorre, Amparo, and Moya, Andrés (2010) Stages of metabolic adaptation of endosymbiotic bacteria. In von Jürgen Heesemann, Michael Hensel (eds) Nova Acta Leopoldina, pp. 141-149.
  • C.M. González-Domenech, J. Puchaka, V.A.P. Martins dos Santos, J. Peretó, A. Moya and L. Delaye (2010) Metabolic reconstruction of Synechococcus elongatus towards a minimal photoautotrophic cell. In Antonio Mendez-Vilas (ed) Microorganisms in Industry and Environment From Scientific and Industrial Research to Consumer Products (World Scientific Publishing Co), pp. 699.
  • Luis Delaye, Manel Porcar y Andrés Moya (2009) La biología sintética frente al reto de la energía. Rubio J.L. (ed) XVII Foro Universitario Juan Luis Vives, Ayuntamiento de Valencia, España.
  • Islas, S., Velasco, A. M., Becerra, A., Delaye, L., and Lazcano, A. (2007) Extremophiles and the origin of life. In Charles Gerday and Nicolas Glansdorff (eds) Phyisiology and Biochemistry of Extremophiles (ASM Press, Washington, D.C.), pp. 3-10.
  • Delaye, L., Becerra, A., Velasco, A.M., Islas, S. and Lazcano, A. (2004) Prebiotic organic synthesis and the emergence of life: from the Miller experiment to the start of biological evolution In  J. Seckbach, J. Chela-Flores, T. Owen, F. Raulin, (eds.) Life in the Universe: from the Miller Experiment to the search of Life on other worlds  (Springer).
  • Delaye, L., Becerra, A., And Lazcano, A. (2004) The nautre of the last common ancestor. In Lluis Ribas de Pouplana (ed.) The Genetic Code and the Origin of Life (Landes Bioscience, and Kluwier Academic). pp. 34-47.
  • Delaye, L., Vazquez, H., and Lazcano, A.(2001) The cenancestor and its contemporary biological relics: the case of nucleic acids polymerases In  Julian Chela-Flores J., Owen, T. and Raulin, F. (eds.), First Steps in the Origin of Life in the Universe (Kluwier Academic Publishers), pp. 223-230.
  • Delaye, L. and Lazcano, A. (2000) RNA-binding peptides as molecular fossils In J.Chela-Flores, G. Lemerchand, and J. Oró (eds) Astrobiology: Origins from the Big-Bang to Civilisation Proceedings of the First Ibero-American School of Astrobiology (Klüwer Academic Publishers, Dordrecht), pp. 285-288. 

Science outreach 

  • Arturo Becerra, Luis Delaye (2015) El ancestro universal, una reconstrucción inacabada. METODE Science Studies Journal. Universitat de Valencia. Num 87. DOI:10.7203/metode.6.4981. Link.
  • Luis Delaye (2014) Biologías Exóticas. Revista digital: "Hacia el Espacio". Ed. 26. Link.
  • David Martínez, Cecilio Valadez, Martha Rendón, Luis Delaye (2013) Evolución, moléculas, hipótesis y cómputo. Ide@as CONCYTEG. 8(95): Mayo, 2013 ISSN:2007-2716. Link.
  • Delaye L and Becerra A (2012) Cenancestor, The Last Universal Common Ancestor. Evo Edu Outreach. 5:382-388.  Link.

 

Other 

  • Arturo Becerra and Luis Delaye (eds.) The quest for simple life. Frontiers Research Topic (2015)Link.