Ingeniería Genómica

Este programa está dedicado a la comprensión de las fuerzas y mecanismos que han forjado la arquitectura genómica de proteobacterias asociadas a plantas (específicamente Rhizobium sp.), tanto en el corto plazo como con una perspectiva evolutiva.

El objetivo a largo plazo es utilizar este conocimiento para desarrollar nuevas estrategias en ingeniería genómica. Para ese fin, nuestras líneas de investigación inciden en los mecanismos y consecuencias evolutivas de la recombinación homóloga, recombinación sitio-específica durante la conjugación de plásmidos, regulación de la transferencia conjugativa, genómica funcional de plásmidos (incluyendo el análisis de funciones codificadas en plásmidos y el papel de factores sigma extracitoplásmicos en respuestas a estrés), así como sistemática molecular, microevolución y filogeografía. Parte de este conocimiento se está integrando en la generación de nuevos enfoques para la generación de deleciones programadas y mutagénesis global del genoma.

Nuestro trabajo combina el análisis bioinformático con enfoques genéticos y de biología molecular así como de análisis de genética de poblaciones.

Académicos del Grupo

NombrePuestoCategoríaCorreoTeléfono
David René Romero CamarenaInvestigadorInv. Tit. C T.C. Definitivodromero@ccg.unam.mx(777) 3175867
Susana Brom KlannerInvestigadorInv. Tit. B T.C. Definitivosbrom@ccg.unam.mx(777) 3291691
Alejandro García de los SantosInvestigadorInv. Tit. A T.C. Interinoalex@ccg.unam.mx(777) 3175867
Pablo Vinuesa FleischmannInvestigadorInv. Tit. B T.C. Definitivovinuesa@ccg.unam.mx(777) 3175867
Araceli Elvira Dávalos RodríguezTécnico AcadémicoTec. Acad. Tit. C T.C. Definitivodavalos@ccg.unam.mx(777) 3175867
Laura Cervantes de la LuzTécnico AcadémicoTec. Acad. Tit. B T.C. Definitivolcervant@ccg.unam.mx(777) 3175867
Javier Rivera CamposTécnico AcadémicoTec. Acad. Tit. A T.C. Definitivojavier@ccg.unam.mx(777) 3175867
María del Carmen Guadarrama RománPosdoctoralDGAPAcarmengr@ccg.unam.mx(777 ) 3175867

Publicaciones del Grupo

AñoPublicaciónPMID
2021Cazares D, Cazares A, Figueroa W, Guarneros G, Edwards RA, Vinuesa P. (2021). "A Novel Group of Promiscuous Podophages Infecting Diverse Gammaproteobacteria from River Communities Exhibits Dynamic Intergenus Host Adaptation.". mSystems. 6(1):-. [doi:10.1128/mSystems.00773-20]33531404
2020Pereira-Santana, A, Gamboa-Tuz, S, Zhao, T, Eric Schranz, M, Vinuesa, P, Bayona, A, Rodríguez-Zapata, L, Castano, E. (2020). "Fibrillarin evolution through the Tree of Life: Comparative genomics and microsynteny network analyses provide new insights into the evolutionary history of Fibrillarin.". Plos Computational Biology. 16(10):e1008318-. [doi:10.1371/journal.pcbi.1008318]33075080
2020Carballo-Ontiveros, M, Cazares, A, Vinuesa, P, Kameyama, L, Guarneros, G. (2020). "The Concerted Action of Two B3-Like Prophage Genes Excludes Superinfecting Bacteriophages by Blocking DNA Entry into pseudomonas Aeruginosa". JOURNAL OF VIROLOGY. 94(15):e00953-20-. [doi:10.1128/JVI.00953-20]32461312
2020Bañuelos-Vazquez, L, Cazares, D, Rodríguez, S, Cervantes-De La Luz, L, Sánchez-López, R, Castellani, L, Tejerizo, G, Brom, S. (2020). "Transfer of the Symbiotic Plasmid of Rhizobium etli CFN42 to Endophytic Bacteria Inside Nodules.". Frontiers in Microbiology. 11():1752-. [doi:10.3389/fmicb.2020.01752]32849381
2020Giner-Lamia J, Vinuesa P, Betancor L, Silva C, Bisio J, Soleto L, Chabalgoity JA, Puente JL, Salmonella CYTED Network, García-Del Portillo F. (2020). "Correction to: Genome analysis of Salmonella enterica subsp. diarizonae isolates from invasive human infections reveals enrichment of virulence-related functions in lineage ST1256.". Bmc Genomics. 21(1):373-373. [doi:10.1186/s12864-020-06781-x]32456693
2020Cabañas, N, Becerra, A, Romero, D, Govezensky, T, Espinosa-Aguirre, J, Camacho-Carranza, R. (2020). "Repetitive DNA profile of the amphibian mitogenome.". Bmc Bioinformatics. 21(1):197-. [doi:10.1186/s12859-020-3532-8]32429835
2020Guzmán-Trampe, S, Ikeda, H, Vinuesa, P, Macías-Rubalcava, M, Esquivel, B, Centeno-Leija, S, Tapia-Cabrera, S, Mora-Herrera, S, Ruiz-Villafán, B, Rodríguez-Sanoja, R, Sanchez, S. (2020). "Production of distinct labdane-type diterpenoids using a novel cryptic labdane-like cluster from Streptomyces thermocarboxydus K155.". Applied Microbiology And Biotechnology. 104(2):741-750. [doi:10.1007/s00253-019-10240-3]31807886
2020López-Sámano, M, Beltrán, L, Sánchez-Thomas, R, Dávalos, A, Villaseñor, T, García-García, J, García-de los Santos, A. (2020). "A novel way to synthesize pantothenate in bacteria involves ß-alanine synthase present in uracil degradation pathway". MICROBIOLOGYOPEN. 9(4):e1006-. [doi:10.1002/mbo3.1006]32112625
2020Bañuelos-Vazquez, L, Castellani, L, Luchetti, A, Romero, D, Torres Tejerizo, G, Brom, S. (2020). "Role of plant compounds in the modulation of the conjugative transfer of pRet42a". Plos One. 15(8):238218-238218. [doi:10.1371/journal.pone.0238218]32845909
2019Gonzalez, V, Isela Santamaria, R, Bustos, P, Maria Perez-Carrascal, O, Vinuesa, P, Juarez, S, Martinez-Flores, I, Angel Cevallos, M, Brom, S, Martinez-Romero, E, Romero, D. (2019). "Phylogenomic Rhizobium Species Are Structured by a Continuum of Diversity and Genomic Clusters". Frontiers in Microbiology. 10():910-. [doi:10.3389/fmicb.2019.00910]31114559
2019Bañuelos-Vazquez, L, Torres Tejerizo, G, Cervantes-De La Luz, L, Girard, L, Romero, D, Brom, S. (2019). "Conjugative transfer between Rhizobium etli endosymbionts inside the root nodule". Environmental Microbiology. 21(9):3430-3441. [doi:10.1111/1462-2920.14645]31037804
2019Giner-Lamia, J, Vinuesa, P, Betancor, L, Silva, C, Bisio, J, Soleto, L, Chabalgoity, J, Puente, J, Soncini, F, García-Vescovi, E, Flores, G, Pedraza, J, Yim, L, García, C, Astocondor, L, Ochoa, T, Hinostroza, N, Graciela Pucciarelli, M, Hernández-Alvarez, A, Del Moral, V, García-Del Portillo, F. (2019). "Genome analysis of Salmonella enterica subsp. diarizonae isolates from invasive human infections reveals enrichment of virulence-related functions in lineage ST1256". Bmc Genomics. 20(1):99-99. [doi:10.1186/s12864-018-5352-z]30704413
2019Vicens, A, Vinuesa, P, Arenas, M, Treviño, C. (2019). "Analyzing the functional divergence of Slo1 and Slo3 channel subfamilies". Molecular Phylogenetics And Evolution. 133():33-41. [doi:10.1016/j.ympev.2018.12.026]30586650
2019Cervantes, L, Miranda-Sánchez, F, Torres Tejerizo, G, Romero, D, Brom, S. (2019). "Plasmid pSfr64a and the symbiotic plasmid pSfr64b of Sinorhizobium fredii GR64 control each other's conjugative transfer through quorum-sensing elements.". Plasmid. 106():102443-. [doi:10.1016/j.plasmid.2019.102443]31689451
2019Castellani, L, Nilsson, J, Wibberg, D, Schlueter, A, Puehler, A, Brom, S, Pistorio, M, Tejerizo, G. (2019). "Insight into the structure, function and conjugative transfer of pLPU83a, an accessory plasmid of Rhizobium Favelukesii LPU83". Plasmid. 103():9-16. [doi:10.1016/j.plasmid.2019.03.004]30928704
2019Elizalde-Díaz JP, Hernández-Lucas I, Medina-Aparicio L, Dávalos A, Leija A, Alvarado-Affantranger X, García-García JD, Hernández G, Garcia-de Los Santos A. (2019). "Rhizobium tropici CIAT 899 copA gene plays a fundamental role in copper tolerance in both free life and symbiosis with Phaseolus vulgaris.". MICROBIOLOGY-SGM. 165(6):651-661. [doi:10.1099/mic.0.000803]31081746
2019de Lajudie, P, Andrews, M, Ardley, J, Eardly, B, Jumas-Bilak, E, Kuzmanovic, N, Lassalle, R, Lindstrom, K, Mhamdi, R, Martinez-Romero, E, Moulin, L, Mousavi, S, Nesme, X, Peix, A, Pulawska, J, Steenkamp, E, Stepkowski, T, Tian, C, Vinuesa, P, Wei, G, Willems, A, Zili, J, Young, P. (2019). "Minimal standards for the description of new genera and species of Rhizobia and agrobacteria". International Journal Of Systematic And Evolutionary Microbiology. 69(7):1852-1863. [doi:10.1099/ijsem.0.003426]31140963
2019Silva C, Calva E, Fernández-Mora M, Puente JL, Vinuesa P. (2019). "Population analysis of D6-like plasmid prophage variants associated with specific IncC plasmid types in the emerging Salmonella Typhimurium ST213 genotype.". Plos One. 14(10):e0223975-. [doi:10.1371/journal.pone.0223975]31626639
2019Edwards, R, Vega, A, Norman, H, Ohaeri, M, Levi, K, Dinsdale, E, Cinek, O, Aziz, R, McNair, K, Barr, J, Bibby, K, Brouns, S, Cazares, A, de Jonge, P, Desnues, C, Díaz Muñoz, S, Fineran, P, Kurilshikov, A, Lavigne, R, Mazankova, K, McCarthy, D, Nobrega, F, Reyes Muñoz, A, Tapia, G, Trefault, N, Tyakht, A, Vinuesa, P, Wagemans, J, Zhernakova, A, Aarestrup, F, Ahmadov, G, Alassaf, A, Anton, J, Asangba, A, Billings, E, Cantu, V, Carlton, J, Cazares, D, Cho, G, Condeff, T, Cortés, P, Cranfield, M, Cuevas, D, De la Iglesia, R, Decewicz, P, Doane, M, Dominy, N, Dziewit, L, Elwasila, B, Eren, A, Franz, C, Fu, J, Garcia-Aljaro, C, Ghedin, E, Gulino, K, Haggerty, J, Head, S, Hendriksen, R, Hill, C, Hyöty, H, Ilina, E, Irwin, M, Jeffries, T, Jofre, J, Junge, R, Kelley, S, Khan Mirzaei, M, Kowalewski, M, Kumaresan, D, Leigh, S, Lipson, D, Lisitsyna, E, Llagostera, M, Maritz, J, Marr, L, McCann, A, Molshanski-Mor, S, Monteiro, S, Moreira-Grez, B, Morris, M, Mugisha, L, Muniesa, M, Neve, H, Nguyen, N, Nigro, O, Nilsson, A, O’Connell, T, Odeh, R, Oliver, A, Piuri, M, Prussin, A, Qimron, U, Quan, Z, Rainetova, P, Ramírez-Rojas, A, Raya, R, Reasor, K, Rice, G, Rossi, A, Santos, R. (2019). "Global phylogeography and ancient evolution of the widespread human gut virus crAssphage.". Nature microbiology. 4(10):1727-1736. [doi:10.1038/s41564-019-0494-6]31285584
2018Vinuesa, P, Ochoa-Sánchez, L, Contreras-Moreira, B. (2018). "GET_PHYLOMARKERS, a software package to select optimal orthologous clusters for phylogenomics and inferring pan-genome phylogenies, used for a critical geno-taxonomic revision of the genus Stenotrophomonas". Frontiers in Microbiology. 9(MAY):771-771. [doi:10.3389/fmicb.2018.00771]29765358
2018Sandner-Miranda, L, Vinuesa, P, Cravioto, A, Morales-Espinosa, R. (2018). "The genomic basis of intrinsic and acquired antibiotic resistance in the genus Serratia". Frontiers in Microbiology. 9(MAY):828-828. [doi:10.3389/fmicb.2018.00828]29867787
2018González-Sánchez A, Cubillas CA, Miranda F, Dávalos A, García-de Los Santos A. (2018). "The ropAe gene encodes a porin-like protein involved in copper transit in Rhizobium etli CFN42". MICROBIOLOGYOPEN. 7(3):e00573-. [doi:10.1002/mbo3.573]29280343
2018Aguilar A, Mora Y, Dávalos A, Girard L, Mora J, Peralta H. (2018). "Analysis of genome sequence and symbiotic ability of rhizobial strains isolated from seeds of common bean (Phaseolus vulgaris).". Bmc Genomics. 19(1):645-645. [doi:10.1186/s12864-018-5023-0]30165827
2017Silva, C, Betancor, L, Garcia, C, Astocondor, L, Hinostroza, N, Bisio, J, Rivera, J, Perezgasga, L, Perez Escanda, V, Yim, L, Jacobs, J, Garcia-del Portillo, F, Chabalgoity, J, Puente, J, SalmoIber CYTED Network. (2017). "Characterization of Salmonella enterica isolates causing bacteremia in Lima, Peru, using multiple typing methods". Plos One. 12(12):e0189946-. [doi:10.1371/journal.pone.0189946]29267322
2017Cubillas, C, Miranda-Sánchez, F, González-Sánchez, A, Elizalde, J, Vinuesa, P, Brom, S, García-de los Santos, A. (2017). "A comprehensive phylogenetic analysis of copper transporting P1BATPases from bacteria of the Rhizobiales order uncovers multiplicity, diversity and novel taxonomic subtypes". MICROBIOLOGYOPEN. 6(4):e00452-. [doi:10.1002/mbo3.452]28217917
2017Martínez-Flores, W, Palma-García, J, Caballero-Ortega, H, Del Viento-Camacho, A, López-Escamilla, E, Martínez-Hernández, F, Vinuesa, P, Correa, D, Maravilla, P. (2017). "Genotyping Toxoplasma Gondii with the B1 Gene in Naturally Infected Sheep from an Endemic Region in the Pacific Coast of Mexico". VECTOR-BORNE AND ZOONOTIC DISEASES. 17(7):495-502. [doi:10.1089/vbz.2016.2085]28530509
2017Santamaría, R, Bustos, P, Pérez-Carrascal, O, Miranda-Sánchez, F, Vinuesa, P, Martínez-Flores, I, Juárez, S, Lozano, L, Martínez-Romero, E, Cevallos, M, Romero, D, Dávila, G, Ormeño-Orrillo, E, González, V. (2017). "Complete Genome Sequences of Eight Rhizobium Symbionts Associated with Common Bean ( Phaseolus vulgaris ).". Genome Announcements. 5(30):-. [doi:10.1128/genomeA.00645-17]28751391
2017Alfredo Banuelos-Vazquez, L, Torres Tejerizo, G, Brom, S. (2017). "Regulation of conjugative transfer of plasmids and integrative conjugative elements". Plasmid. 91():82-89. [doi:10.1016/j.plasmid.2017.04.002]28438469
2017Bustos, P, Santamaría, R, Pérez-Carrascal, O, Acosta, J, Lozano, L, Juárez, S, Martínez-Flores, I, Martínez-Romero, E, Cevallos, M, Romero, D, Dávila, G, Vinuesa, P, Miranda, F, Ormeño, E, González, V. (2017). "Complete Genome Sequences of Three Rhizobium gallicum Symbionts Associated with Common Bean ( Phaseolus vulgaris ).". Genome Announcements. 5(11):-. [doi:10.1128/genomeA.00030-17]28302777
2016Vinuesa, P, Puente, J, Calva, E, Zaidi, M, Silva, C. (2016). "Complete genome sequence of Salmonella enterica serovar Typhimurium strain SO3 (sequence type 302) isolated from a baby with meningitis in Mexico". Microbiology Resource Announcements. 4(2):e00285-16-. [doi:10.1128/genomeA.00285-16]27103717
2016Centeno-Leija, S, Vinuesa, P, Karol Rodr�guez-Pe�a, , Trenado-Uribe, M, Yair C�rdenas-Conejo, , Serrano-Posada, H, Romina Rodr�guez-Sanoja, , S�ncheza, S. (2016). "Draft genome Sequence of an endophytic actinoplanes species, encoding uncommon trans-Acyltransferase polyketide synthases". Microbiology Resource Announcements. 4(2):e00164-16-. [doi:10.1128/genomeA.00164-16]27013046
2016Sandner-Miranda, L, Vinuesa, P, Sober�n-Ch�vez, G, Morales-Espinosa, R. (2016). "Complete genome sequence of Serratia marcescens SmUNAM836, a nonpigmented multidrug-resistant strain isolated from a Mexican patient with obstructive pulmonary disease". Microbiology Resource Announcements. 4(1):e01417-15-. [doi:10.1128/genomeA.01417-15]26798087
2016Silva, C, Calva, E, Puente, J, Zaidi, M, Vinuesa, P. (2016). "Complete genome sequence of Salmonella enterica serovar Typhimurium strain YU15 (sequence type 19) harboring the Salmonella genomic island 1 and virulence plasmid pSTV". Microbiology Resource Announcements. 4(2):e00252-16-. [doi:10.1128/genomeA.00252-16]27081132
2016Perez Carrascal, O, VanInsberghe, D, Juarez, S, Polz, M, Vinuesa, P, Gonzalez, V. (2016). "Population genomics of the symbiotic plasmids of sympatric nitrogen-fixing Rhizobium species associated with Phaseolus vulgaris". Environmental Microbiology. 18(8):2660-2676. [doi:10.1111/1462-2920.13415]27312778
2016Silva, C, Calva, E, Puente, J, Zaidi, M, Vinuesa, P. (2016). "Complete genome sequence of Salmonella enterica serovar Typhimurium strain SO2 (sequence type 302) isolated from an asymptomatic child in Mexico". Microbiology Resource Announcements. 4(2):e00253-16-. [doi:10.1128/genomeA.00253-16]27081133
2016Hernández-Tamayo, R, Torres-Tejerizo, G, Brom, S, Romero, D. (2016). "Site-specific bacterial chromosome engineering mediated by IntA integrase from Rhizobium etli". Bmc Microbiology. 16(1):133-133. [doi:10.1186/s12866-016-0755-y]27357704
2016Miranda-Sanchez, F, Rivera, J, Vinuesa, P. (2016). "Diversity patterns of Rhizobiaceae communities inhabiting soils, root surfaces and nodules reveal a strong selection of rhizobial partners by legumes". Environmental Microbiology. 18(8):2375-2391. [doi:10.1111/1462-2920.13061]26395550
2016Calvillo, G, Romero, D. (2016). "On the closest point to the origin in transportation polytopes". DISCRETE APPLIED MATHEMATICS. 210():88-102. [doi:10.1016/j.dam.2015.01.027]
2015Riquelme, C, Camara, S, Enes Dapkevicius, M, Vinuesa, P, Gomes da Silva, C, Xavier Malcata, F, Rego, O. (2015). "Characterization of the bacterial biodiversity in Pico cheese (an artisanal Azorean food)". International Journal Of Food Microbiology. 192():86-94. [doi:10.1016/j.ijfoodmicro.2014.09.031]25440551
2015Torres Tejerizo, G, Bañuelos, L, Cervantes, L, Gaytán, P, Pistorio, M, Romero, D, Brom, S. (2015). "Development of molecular tools to monitor conjugative transfer in Rhizobia". JOURNAL OF MICROBIOLOGICAL METHODS. 117():155-163. [doi:10.1016/j.mimet.2015.08.005]26272377
2015Vinuesa, P, Contreras-Moreira, B. (2015). "Pangenomic Analysis of the Rhizobiales Using the GET_HOMOLOGUES Software Package". Biological Nitrogen Fixation. 1-2():271-280. [doi:10.1002/9781119053095.ch27]
2015Vinuesa, P, Ochoa-S�nchez, L. (2015). "Complete genome sequencing of Stenotrophomonas acidaminiphila ZAC14D2_NAIMI4_2, a multidrug-resistant strain isolated from sediments of a polluted river in Mexico, uncovers new antibiotic resistance genes and a novel class-II lasso peptide biosynthesis gene cluster". Microbiology Resource Announcements. 3(6):e0143315-. [doi:10.1128/genomeA.01433-15]26659678
2015Yáñez-Cuna, F, Castellanos, M, Romero, D. (2015). "Biased gene conversion in Rhizobium etli is caused by preferential double-strand breaks on one of the recombining homologs". Journal Of Bacteriology. 198(3):591-599. [doi:10.1128/JB.00768-15]26598365
2015Pablo Vinuesa, Contreras-Moreira, B. (2015). "Robust Identification of Orthologues and Paralogues for Microbial Pan-Genomics Using GET_HOMOLOGUES: A Case Study of pIncA/C plasmids". Bacterial Pangenomics: Methods And Protocols. 1231():203-232. [doi:10.1007/978-1-4939-1720-4_14]
2015López-Fuentes E, Torres-Tejerizo G, Cervantes L, Brom S. (2015). "Genes encoding conserved hypothetical proteins localized in the conjugative transfer region of plasmid pRet42a from Rhizobium etli CFN42 participate in modulating transfer and affect conjugation from different donors". Frontiers in Microbiology. 5():793-793. [doi:10.3389/fmicb.2014.00793]25642223
2014Cubillas, C, Vinuesa, P, Tabche, M, Davalos, A, Vazquez, A, Hernandez-Lucas, I, Romero, D, Garcia-de los Santos, A. (2014). "The cation diffusion facilitator protein EmfA of Rhizobium etli belongs to a novel subfamily of Mn<sup>2+</sup>/Fe<sup>2+</sup> transporters conserved in a-proteobacteria". Metallomics. 6(10):1808-1815. [doi:10.1039/c4mt00135d]25054342
2014Chang, F, Coyne, H, Cubillas Ramírez, C, Vinuesa Fleischmann, P, Fang, X, Ma, Z, Ma, D, Helmann, J, García de los Santos, A, Wang, Y, Dann, C, Giedroc, D. (2014). "Cu(I)-mediated allosteric switching in a copper-sensing operon repressor (CsoR)". JOURNAL OF BIOLOGICAL CHEMISTRY. 289(27):19204-19217. [doi:10.1074/jbc.M114.556704]24831014
2014Rogel, M, Bustos, P, Santamaría, R, González Zúñiga, V, Romero, D, Cevallos, M, Lozano, L, Castro-Mondragón, J, Martínez-Romero, J, Ormeño-Orrillo, E, Martinez-Romero, E. (2014). "Genomic basis of symbiovar mimosae in Rhizobium etli". Bmc Genomics. 15(1):575-575. [doi:10.1186/1471-2164-15-575]25005495
2014Brom, S, Pistorio, M, Romero, D, Torres-Tejerizo, G. (2014). "Boundaries for conjugative transfer of rhizobial plasmids: Restraining and releasing factors". Plasticity In Plant-Growth-Promoting And Phytopathogenic Bacteria. 9781461492030():43-54. [doi:10.1007/978-1-4614-9203-0_3]
2014Tejerizo, G, Pistorio, M, Althabegoiti, M, Cervantes de la Luz, L, Wibberg, D, Schluter, A, Puhler, A, Lagares, A, Romero Camarena, D, Brom Klanner, S. (2014). "Rhizobial plasmid pLPU83a is able to switch between different transfer machineries depending on its genomic background". Fems Microbiology Ecology. 88(3):565-578. [doi:10.1111/1574-6941.12325]24646299
2013Contreras-Moreira, B, Vinuesa Fleischmann, P. (2013). "GET_HOMOLOGUES, a versatile software package for scalable and robust microbial pangenome analysis". Applied And Environmental Microbiology. 79(24):7696-7701. [doi:10.1128/AEM.02411-13]24096415
2013Estrada De Los Santos, P, Vinuesa Fleischmann, P, Martínez Aguilar, L, Hirsch, A, Caballero Mellado, J. (2013). "Phylogenetic analysis of Burkholderia species by multilocus Sequence Analysis". Current Microbiology. 67(1):51-60. [doi:10.1007/s00284-013-0330-9]23404651
2013Cubillas Ramírez, C, Vinuesa Fleischmann, P, Tabche, M, García de los Santos, A. (2013). "Phylogenomic analysis of Cation Diffusion Facilitator proteins uncovers Ni2+/Co2+ transporters". Metallomics. 5(12):1634-1643. [doi:10.1039/c3mt00204g]24077251
2013Hernández Tamayo, R, Sohlenkamp, C, Puente, J, Brom Klanner, S, Romero Camarena, D. (2013). "Characterization of IntA, a bidirectional site-specific recombinase required for conjugative transfer of the symbiotic plasmid of Rhizobium etli CFN42". Journal Of Bacteriology. 195(20):4668-4677. [doi:10.1128/JB.00714-13]23935046
2012Romero Camarena, D. (2012). "Aspectos bioeticos de la generación de células sintéticas". Valores para la sociedad contemporánea. En qué pueden creer los que no creen. ():456-462.
2012Castillo-Rodal, A, Mazari-Hiriart, M, Lloret-Sánchez, L, Sachman Ruiz, B, Vinuesa Fleischmann, P, López-Vidal, Y. (2012). "Potentially pathogenic nontuberculous mycobacteria found in aquatic systems. Analysis from a reclaimed water and water distribution system in Mexico City". European Journal Of Clinical Microbiology and Infectious Diseases. 31(5):683-694. [doi:10.1007/s10096-011-1359-y]21805195
2012Tejerizo, G, Lozano, L, Gonzalez, V, Bustos, P, Romero, D, Brom, S. (2012). "Draft genome sequence of the bean-nodulating Sinorhizobium fredii strain GR64". Journal Of Bacteriology. 194(24):6978-6978. [doi:10.1128/JB.01882-12]23209231
2012Bonilla-Rosso, G, Eguiarte, L, Romero Camarena, D, Travisano, M, Souza, V. (2012). "Understanding microbial community diversity metrics derived from metagenomes: Performance evaluation using simulated data sets". Fems Microbiology Ecology. 82(1):37-49. [doi:10.1111/j.1574-6941.2012.01405.x]22554028
2012Escalera-Zamudio, M, Cobian-Guemes, G, Soto-del Río, M, Isa, P, Sánchez-Betancourt, I, Parissi-Crivelli, A, Martinez-Cazares, M, Romero, P, Velázquez-Salinas, L, Huerta-Lozano, B, Nelson, M, Montero, H, Vinuesa Fleischmann, P, López, S, Arias, C. (2012). "Characterization of an influenza A virus in Mexican swine that is related to the A/H1N1/2009 pandemic clade". Virology. 433(1):176-182. [doi:10.1016/j.virol.2012.08.003]22921315
2012Calvillo, G, Romero, D. (2012). "The dominance assignment problem". DISCRETE OPTIM. 9(3):149-158. [doi:10.1016/j.disopt.2012.06.001]
2012Romero, D, Alonso-Pecina, F. (2012). "Ad hoc heuristic for the cover printing problem". DISCRETE OPTIM. 9(1):17-28. [doi:10.1016/j.disopt.2011.10.002]
2011Silva-Sanchez, J, Garza-Ramos, J, Reyna-Flores, F, Sánchez-Pérez, A, Rojas-Moreno, T, Andrade-Almaraz, V, Pastrana, J, Castro-Romero, J, Vinuesa Fleischmann, P, Barrios, H, Cervantesde, C. (2011). "Extended-spectrum ß-Lactamase-Producing Enterobacteriaceae Causing Nosocomial Infections in Mexico. A Retrospective and Multicenter Study". Archives Of Medical Research. 42(2):156-162. [doi:10.1016/j.arcmed.2011.02.004]21565630
2011Landeta Escamilla, C, Dávalos Rodríguez, A, Cevallos Gaos, M, Geiger, O, Brom Klanner, S, Romero Camarena, D. (2011). "Plasmids with a chromosome-like role in Rhizobia". Journal Of Bacteriology. 193(6):1317-1326. [doi:10.1128/JB.01184-10]21217003
2011Sachman-Ruiz, B, Contreras-Moreira, B, Zozaya, E, Martínez-Garza, C, Vinuesa, P. (2011). "Primers4clades: A Web Server to Design Lineage-Specific PCR Primers for Gene-Targeted Metagenomics". Handbook of Molecular Microbial Ecology I: Metagenomics and Complementary Approaches. 1():441-452. [doi:10.1002/9781118010518.ch51]
2011Acosta, J, Eguiarte, L, Santamaria Gutiérrez, R, Bustos Arcos, V, Vinuesa P, Martínez Romero, M, Dávila Ramos, J, González Zúñiga, V. (2011). "Genomic lineages of Rhizobium etli revealed by the extent of nucleotide polymorphisms and low recombination". Bmc Evolutionary Biology. 11(1):305-305. [doi:10.1186/1471-2148-11-305]22004448
2011Cervantes de la Luz, L, Bustos Arcos, V, Girard Cuesy, M, Santamaria Gutiérrez, R, Dávila Ramos, J, Vinuesa Fleischmann, P, Romero Camarena, D, Brom Klanner, S. (2011). "The conjugative plasmid of a bean-nodulating Sinorhizobium fredii strain is assembled from sequences of two Rhizobium plasmids and the chromosome of a Sinorhizobium strain". Bmc Microbiology. 11(1):1-11. [doi:10.1186/1471-2180-11-149]21702991
2011Villaseñor Toledo, T, Dávalos Rodríguez, A, Lozano Aguirre Beltrán, L, Romero Camarena, D, García de los Santos, A. (2011). "Housekeeping genes essential for pantothenate biosynthesis are plasmid-encoded in Rhizobium etli and Rhizobium leguminosarum". Bmc Microbiology. 11():66-66. [doi:10.1186/1471-2180-11-66]21463532
2010Vinuesa, P. (2010). "multilocus Sequence Analysis and Bacterial Species Phylogeny Estimation". Molecular Phylogeny of Microorganisms. ():41-64.
2009Martinez-Salazar, J, Sandoval-Calderon, M, Guo, X, Castillo-Ramirez, S, Reyes, A, Loza, M, Rivera, J, Alvarado-Affantranger, X, Sanchez, F, Gonzalez, V, Davila, G, Ramirez-Romero, M. (2009). "The Rhizobium etli RpoH1 and RpoH2 sigma factors are involved in different stress responses". MICROBIOLOGY-SGM. 155(2):386-397. [doi:10.1099/mic.0.021428-0]19202087
2009Cummings, S, Gyaneshwar, P, Vinuesa, P, Farruggia, F, Andrews, M, Humphry, D, Elliott, G, Nelson, A, Orr, C, Pettitt, D, Shah, G, Santos, S, Krishnan, H, Odee, D, Moreira, F, Sprent, J, Young, J, James, E. (2009). "Nodulation of Sesbania species by Rhizobium (Agrobacterium) strain IRBG74 and other Rhizobia". Environmental Microbiology. 11(10):2510-2525. [doi:10.1111/j.1462-2920.2009.01975.x]19555380
2009Contreras-Moreira, B, Sachman-Ruiz, B, Figueroa-Palacios, I, Vinuesa, P. (2009). "primers4clades: A web server that uses phylogenetic trees to design lineage-specific PCR primers for metagenomic and diversity studies". Nucleic Acids Research. 37(SUPPL. 2):95-100. [doi:10.1093/nar/gkp377]19465390
2009Castellanos, M, Romero, D. (2009). "The extent of migration of the holliday junction is a crucial factor for gene conversion in Rhizobium etli". Journal Of Bacteriology. 191(15):4987-4995. [doi:10.1128/JB.00111-09]19502410
2009Martinez-Salazar, J, Salazar, E, Encarnacion, S, Ramirez-Romero, M, Rivera, J. (2009). "Role of the Extracytoplasmic Function Sigma Factor RpoE4 in Oxidative and Osmotic Stress Responses in Rhizobium etli". Journal Of Bacteriology. 191(13):4122-4132. [doi:10.1128/JB.01626-08]19376852
2009Martinez-Salazar, J, Zuniga-Castillo, J, Romero, D. (2009). "Differential roles of proteins involved in migration of Holliday junctions on recombination and tolerance to DNA damaging agents in Rhizobium etli". Gene. 432(1-2):26-32. [doi:10.1016/j.gene.2008.11.009]19071199
2008Vinuesa, P, Rojas-Jimenez, K, Contreras-Moreira, B, Mahna, S, Prasad, B, Moe, H, Selvaraju, S, Thierfelder, H, Werner, D. (2008). "multilocus Sequence Analysis for assessment of the biogeography and evolutionary genetics of four Bradyrhizobium species that nodulate soybeans on the asiatic continent". Applied And Environmental Microbiology. 74(22):6987-6996. [doi:10.1128/AEM.00875-08]18791003
2008Renteria, M, Gandhi, N, Vinuesa, P, Helmerhorst, E, Mancera, R. (2008). "A comparative structural bioinformatics analysis of the insulin receptor family ectodomain based on phylogenetic information". Plos One. 3(11):e3667-. [doi:10.1371/journal.pone.0003667]18989367
2008Crossman, L, Castillo-Ramirez, S, McAnnula, C, Lozano, L, Vernikos, G, Acosta, J, Ghazoui, Z, Hernandez-Gonzalez, I, Meakin, G, Walker, A, Hynes, M, Young, J, Downie, J, Romero, D, Johnston, A, Davila, G, Parkhill, J, Gonzalez, V. (2008). "A common genomic framework for a diverse assembly of plasmids in the symbiotic nitrogen fixing bacteria". Plos One. 3(7):e2567-. [doi:10.1371/journal.pone.0002567]18596979
2008Sepulveda, E, Perez-Mendoza, D, Ramirez-Romero, M, Soto, M, Lopez-Lara, I, Geiger, O, Sanjuan, J, Brom, S, Romero, D. (2008). "Modulation of conjugative activity of rhizobial symbiotic plasmids by repression and transcriptional interference". FEBS JOURNAL. 275(1):49-49.
2008Sepulveda, E, Perez-Mendoza, D, Ramirez-Romero, M, Soto, M, Lopez-Lara, I, Geiger, O, Sanjuan, J, Brom, S, Romero, D. (2008). "Transcriptional interference and repression modulate the conjugative ability of the symbiotic plasmid of Rhizobium etli". Journal Of Bacteriology. 190(12):4189-4197. [doi:10.1128/JB.00041-08]18424522
2008Garcfa-de los Santos, A, Lopez, E, Cubillas, C, Noel, K, Brom, S, Romero, D. (2008). "Requirement of a plasmid-encoded catalase for survival of Rhizobium etli CFN42 in a polyphenol-rich environment". Applied And Environmental Microbiology. 74(8):2398-2403. [doi:10.1128/AEM.02457-07]18310436
2008Cerritos, R, Vinuesa, P, Eguiarte, L, Herrera-Estrella, L, Alcaraz-Peraza, L, Arvizu-Gomez, J, Olmedo, G, Ramirez, E, Siefert, J, Souza, V. (2008). "Bacillus coahuilensis sp. nov., a moderately halophilic species from a desiccation lagoon in the Cuatro Ciénegas Valley in Coahuila, Mexico". International Journal Of Systematic And Evolutionary Microbiology. 58(4):919-923. [doi:10.1099/ijs.0.64959-0]18398195
2007Top, E, Romero, D. (2007). "Evolution and ecology - Summary". Plasmid. 57(2):223-225.
2007Romero, D, Zertuche, F. (2007). "Number of different binary functions generated by NK -Kauffman networks and the emergence of genetic robustness". J MATH PHYS. 48(8):-. [doi:10.1063/1.2768747]
2007Silva Romero, C, Vinuesa Fleischmann, P. (2007). "Ecología evolutiva de bacterias y el concepto de especie: el caso de los rizobios". Ecología Molecular. ():351-392.
2007Sepulveda, E, Perez-Mendoza, D, Munoz, S, Ramirez-Romero, M, Soto, M, Cervantes, L, Herrera-Cervera, J, Lopez-Lara, I, Geiger, O, Sanuan, J, Brom, S, Romero, D. (2007). "Regulation of conjugal transfer of the Rhizobium etli Sym plasmid.". Plasmid. 57(2):220-221.
2007Romero, D, Garcia-De Los Santos, A, Brom, S. (2007). "Essential plasmids in Rhizobium.". Plasmid. 57(2):227-227.
2007Poggio, S, Abreu-Goodger, C, Fabela, S, Osorio, A, Dreyfus, G, Vinuesa, P, Camarena, L. (2007). "A complete set of flagellar genes acquired by horizontal transfer coexists with the endogenous flagellar system in Rhodobacter sphaeroides". Journal Of Bacteriology. 189(8):3208-3216. [doi:10.1128/JB.01681-06]17293429
2007Brom, S, Garcia-De Los Santos, A, Romero, L. (2007). "Conjugative transfer of Rhizobium plasmids.". Plasmid. 57(2):220-220.
2007Romero, D, Sánchez-Arroyo, A. (2007). "Adding evidence to the Erdos-Faber-Lovász conjecture". Ars Combinatoria. 85():71-84.
2007Pinero, S, Rivera, J, Romero, D, Cevallos, M, Martinez, A, Bolivar, F, Gosset, G. (2007). "Tyrosinase from Rhizobium etli is involved in nodulation efficiency and symbiosis-associated stress resistance". JOURNAL OF MOLECULAR MICROBIOLOGY AND BIOTECHNOLOGY. 13(1-3):35-44. [doi:10.1159/000103595]17693711
2007Ramirez-Trujillo, J, Encarnacion, S, Salazar, E, de los Santos, A, Dunn, M, Emerich, D, Calva, E, Hernandez-Lucas, I. (2007). "Functional characterization of the Sinorhizobium meliloti acetate metabolism genes aceA, SMc00767, and glcB". Journal Of Bacteriology. 189(16):5875-5884. [doi:10.1128/JB.00385-07]17526694
2007Granados Baeza, M, Gómez Hernández, N, Mora, Y, Delgado, M, Romero Camarena, D, Girard Cuesy, M. (2007). "Novel reiterated Fnr-type proteins control the production of the symbiotic terminal oxidase cbb3 in Rhizobium etli CFN42". Molecular Plant-Microbe Interactions. 20(10):1241-1249. [doi:10.1094/MPMI-20-10-1241]17918626
2007Sohlenkamp, C, Galindo-Lagunas, K, Guan, Z, Vinuesa, P, Robinson, S, Thomas-Oates, J, Raetz, C, Geiger, O. (2007). "The lipid lysyl-phosphatidylglycerol is present in membranes of Rhizobium tropici CIAT899 and confers increased resistance to polymyxin B under acidic growth conditions". Molecular Plant-Microbe Interactions. 20(11):1421-1430. [doi:10.1094/MPMI-20-11-1421]17977153
2006Albino, U, Saridakis, D, Ferreira, M, Hungria, M, Vinuesa, P, Andrade, G. (2006). "High diversity of diazotrophic bacteria associated with the carnivorous plant Drosera villosa var. villosa growing in oligotrophic habitats in Brazil". PLANT AND SOIL. 287(1-2):199-207. [doi:10.1007/s11104-006-9066-7]
2006Ormeño Orrillo, E, Vinuesa Fleischmann, P, Zuniga-Davila, D, Martínez Romero, M. (2006). "Molecular diversity of native bradyrhizobia isolated from Lima bean (Phaseolus lunatus L.) in Peru". Systematic And Applied Microbiology. 29(3):253-262. [doi:10.1016/j.syapm.2005.09.002]16564961
2006Silva Romero, C, Vinuesa Fleischmann, P, Martínez Romero, M. (2006). "Species delineation and biogeography of Rhizobia: Two case studies". Proceedings of the 12th International Congress on Molecular Plant-Microbe Interactions. 5():319-324.
2005Romero, D. (2005). "Revista Latinoamericana de Microbiologia: Message from the Editor in chief". Revista Latinoamericana De Microbiologia. 47(1-2):5-5.
2005Romero, D, Zertuche, F. (2005). "Grasping the connectivity of random functional graphs". STUD SCI MATH HUNG. 42(1):1-9. [doi:10.1556/SScMath.42.2005.1.1]
2005Santoyo, G, Martinez-Salazar, J, Rodriguez, C, Romero, D. (2005). "Gene conversion tracts associated with crossovers in Rhizobium etli". Journal Of Bacteriology. 187(12):4116-4126. [doi:10.1128/JB.187.12.4116-4126.2005]15937174
2005Shamseldin, A, Vinuesa, P, Thierfelder, H, Werner, D. (2005). "Rhizobium etli and Rhizobium gallicum nodulate Phaseolus vulgaris in Egyptian soils and display cultivar-dependent symbiotic efficiency". Symbiosis. 38(2):145-161.
2005Rojas-Jimenez, K, Sohlenkamp, C, Geiger, O, Martínez Romero, M, Werner, D, Vinuesa Fleischmann, P. (2005). "A CIC chloride channel homolog and ornithine-containing membrane lipids of Rhizobium tropici CIAT899 are involved in symbiotic efficiency and acid tolerance". Molecular Plant-Microbe Interactions. 18(11):1175-1185. [doi:10.1094/MPMI-18-1175]16353552
2005Silva Romero, C, Vinuesa Fleischmann, P, Eguiarte, L, Souza, V, Martínez Romero, M. (2005). "Evolutionary genetics and biogeographic structure of Rhizobium gallicum sensu lato, a widely distributed bacterial symbiont of diverse legumes". MOLECULAR ECOLOGY. 14(13):4033-4050. [doi:10.1111/j.1365-294X.2005.02721.x]16262857
2005Perez-Mendoza, D, Sepulveda, E, Pando, V, Munoz, S, Nogales, J, Olivares, J, Soto, M, Herrera-Cervera, J, Romero, D, Brom, S, Sanjuan, J. (2005). "Identification of the rctA gene, which is required for repression of conjugative transfer of rhizobial symbiotic megaplasmids". Journal Of Bacteriology. 187(21):7341-7350. [doi:10.1128/JB.187.21.7341-7350.2005]16237017
2005Vinuesa Fleischmann, P, Silva Romero, C, Lorite, M, Izaguirre-Mayoral, M, Bedmar, E, Martínez Romero, M. (2005). "Molecular systematics of Rhizobia based on maximum likelihood and Bayesian phylogenies inferred from rrs, atpD, recA and nifH sequences, and their use in the classification of Sesbania microsymbionts from Venezuelan wetlands". Systematic And Applied Microbiology. 28(8):702-716. [doi:10.1016/j.syapm.2005.05.007]16261860
2005Guillen-Navarro, K, Araiza, G, Garcia-de los Santos, A, Mora, Y, Dunn, M. (2005). "The Rhizobium etli bioMNY operon is involved in biotin transport". Fems Microbiology Letters. 250(2):209-219. [doi:10.1016/j.femsle.2005.07.020]16099603
2005Vinuesa Fleischmann, P, Silva Romero, C, Werner, D, Martínez Romero, M. (2005). "Population genetics and phylogenetic inference in bacterial molecular systematics: The roles of migration and recombination in Bradyrhizobium species cohesion and delineation". Molecular Phylogenetics And Evolution. 34(1):29-54. [doi:10.1016/j.ympev.2004.08.020]15579380
2005Santoyo Pizano, G, Romero Camarena, D. (2005). "Gene conversion and concerted evolution in bacterial genomes". Fems Microbiology Reviews. 29(2):169-183. [doi:10.1016/j.femsre.2004.10.004]15808740
2005Vinuesa Fleischmann, P, Leon-Barrios, M, Silva Romero, C, Willems, A, Jarabo-Lorenzo, A, Perez-Galdona, R, Werner, D, Martínez Romero, M. (2005). "Bradyrhizobium canariense sp. nov., an acid-tolerant endosymbiont that nodulates endemic genistoid legumes (Papilionoideae: Genisteae) from the Canary Islands, along with Bradyrhizobium japonicum bv. genistearum, Bradyrhizobium genospecies alpha and Bradyrhizobium genospecies beta". International Journal Of Systematic And Evolutionary Microbiology. 55(2):569-575. [doi:10.1099/ijs.0.63292-0]15774626
2004Sepulveda, E, Perez-Mendoza, D, Munoz, S, Ramirez-Romero, M, Soto, M, Cervantes, L, Herrera-Cervera, J, Lopez-Lara, I, Geiger, O, Sanuan, J, Brom, S, Romero, D. (2004). "Identification of functional mob regions in Rhizobium etli: Evidence for self-transmissibility of the symbiotic plasmid pRetCFN42d". Journal Of Bacteriology. 186(17):5753-5761. [doi:10.1128/JB.186.17.5753-5761.2004]15317780
2004Medrano Soto, L, Moreno Hagelsieb, G, Vinuesa Fleischmann, P, Christen, J, Collado Vides, P. (2004). "Successful lateral transfer requires codon usage compatibility between foreign genes and recipient genomes". MOLECULAR BIOLOGY AND EVOLUTION. 21(10):1884-1894. [doi:10.1093/molbev/msh202]15240837
2004Zuniga-Castillo, J, Romero, D, Martinez-Salazar, J. (2004). "The recombination genes addAB are not restricted to gram-positive bacteria: Genetic analysis of the recombination initiation enzymes recF and addAB in Rhizobium etli". Journal Of Bacteriology. 186(23):7905-7913. [doi:10.1128/JB.186.23.7905-7913.2004]15547262
2004Brom Klanner, S, Girard Cuesy, M, Tun Garrido, C, García de los Santos, A, Bustos Arcos, V, González Zúñiga, V, Romero Camarena, D. (2004). "Transfer of the symbiotic plasmid of Rhizobium etli CFN42 requires cointegration with p42a, which may be mediated by site-specific recombination". Journal Of Bacteriology. 186(22):7538-7548. [doi:10.1128/JB.186.22.7538-7548.2004]15516565
2004Pérez, J, Pazos, R, Frausto, J, Rodríguez, G, Romero, D, Cruz, L. (2004). "A statistical approach for algorithm selection". LECT NOTES COMPUT SC. 3059():417-431. [doi:10.1007/978-3-540-24838-5_31]
2004Vinuesa, P, Silva, C. (2004). "Species delineation and biogeography of symbiotic bacteria associated with cultivated and wild legumes". Biological Resources And Migration. ():143-155.
2003Tun-Garrido, C, Bustos, P, Gonzalez, V, Brom, S. (2003). "Conjugative transfer of p42a from Rhizobium etli CFN42, which is required for mobilization of the symbiotic plasmid, is regulated by quorum sensing". Journal Of Bacteriology. 185(5):1681-1692. [doi:10.1128/JB.185.5.1681-1692.2003]12591886
2003Silva, C, Vinuesa, P, Eguiarte, L, Martinez-Romero, E, Souza, V. (2003). "Rhizobium etli and Rhizobium gallicum nodulate common bean (Phaseolus vulgaris) in a traditionally managed milpa plot in Mexico: Population genetics and biogeographic implications". Applied And Environmental Microbiology. 69(2):884-893. [doi:10.1128/AEM.69.2.884-893.2003]12571008
2003Vinuesa Fleischmann, P, Neumann-Silkow, F, Pacios-Bras, C, Spaink, H, Martínez Romero, M, Werner, D. (2003). "Genetic analysis of a pH-regulated operon from Rhizobium tropici CIAT899 involved in acid tolerance and nodulation competitiveness". Molecular Plant-Microbe Interactions. 16(2):159-168. [doi:10.1094/MPMI.2003.16.2.159]12575750
2003Jahn, O, Davila, G, Romero, D, Noel, K. (2003). "BacS: An abundant bacteroid protein in Rhizobium etli whose expression ex planta requires nifA". Molecular Plant-Microbe Interactions. 16(1):65-73. [doi:10.1094/MPMI.2003.16.1.65]12580283
2003Pérez O., J, Pazos R., R, Romero, D, Santaolaya S., R, Rodriguez O., G, Sosa S., V. (2003). "Adaptive and scalable allocation of data-objects in the web". LECT NOTES COMPUT SC. 2667():134-143. [doi:10.1007/3-540-44839-x_15]
2003Vargas, M, Encarnacion, S, Davalos, A, Reyes-Perez, A, Mora, Y, Garcia-de los Santos, A, Brom, S, Moral, J. (2003). "Only one catalase, katG, is detectable in Rhizobium etli, and is encoded along with the regulator OxyR on a plasmid replicon". MICROBIOLOGY-SGM. 149(5):1165-1176. [doi:10.1099/mic.0.25909-0]12724378
2003González Zúñiga, V, Bustos Arcos, V, Ramírez Romero, M, Medrano Soto, L, Salgado Osorio, H, Hernández González, I, Hernández Celis, J, Quintero Hernández, V, Moreno Hagelsieb, G, Girard Cuesy, M, Rodríguez Sánchez, O, Flores López, M, Cevallos Gaos, M, Collado Vides, P, Romero Camarena, D, Dávila Ramos, J. (2003). "The mosaic structure of the symbiotic plasmid of Rhizobium etli CFN42 and its relation to other symbiotic genome compartments.". Genome Biology. 4(6):R36-. [doi:10.1186/gb-2003-4-6-r36]12801410
2003Romero, D, Zertuche, F. (2003). "The asymptotic number of attractors in the random map model". JOURNAL OF PHYSICS A-MATHEMATICAL AND GENERAL. 36(13):3691-3700. [doi:10.1088/0305-4470/36/13/304]
2002Garcia-de los Santos, A, Morales, A, Baldoma, L, Clark, S, Brom, S, Yost, C, Hernandez-Lucas, I, Aguilar, J, Hynes, M. (2002). "The glcB locus of Rhizobium leguminosarum VF39 encodes an arabinose-inducible malate synthase". Canadian Journal Of Microbiology. 48(10):922-932. [doi:10.1139/w02-091]12489782
2002Ramírez Alfonsín, J, Romero, D. (2002). "Embeddability of the combinohedron". DISCRETE MATH. 254(1-3):473-483. [doi:10.1016/S0012-365X(01)00298-9]
2002Cevallos, M, Porta, H, Izquierdo, J, Tun-Garrido, C, Garcia-de-los-Santos, A, Davila, G, Brom, S. (2002). "Rhizobium etli CFN42 contains at least three plasmids of the repABC family: A structural and evolutionary analysis". Plasmid. 48(2):104-116. [doi:10.1016/S0147-619X(02)00119-1]12383728
2002Falcon, L, Escobar-Briones, E, Romero, D. (2002). "Nitrogen fixation patterns displayed by cyanobacterial consortia in Alchichica crater-lake, Mexico". Hydrobiologia. 467(1-3):71-78. [doi:10.1023/A:1014984629985]
2002Encarnacion, S, del Vargas, M, Dunn, M, Davalos, A, Mendoza, G, Mora, Y, Mora, J. (2002). "aniA regulates reserve polymer accumulation and global protein expression in Rhizobium etli". Journal Of Bacteriology. 184(8):2287-2295. [doi:10.1128/JB.184.8.2287-2295.2002]11914361
2002Brom Klanner, S, Girard Cuesy, M, García de los Santos, A, Sanjuan-Pinilla, J, Olivares, J, Sanjuan, J. (2002). "Conservation of plasmid-encoded traits among bean-nodulating Rhizobium species". Applied And Environmental Microbiology. 68(5):2555-2561. [doi:10.1128/AEM.68.5.2555-2561.2002]11976134
2001Díaz-Leal, H, Martínez-Bernal, J, Romero, D. (2001). "Dimension of the fixed point set of a nilpotent endomorphism on the flag variety". BOL SOC MAT MEX. 7(1):23-33.
2001López, O, Morera, C, Miranda-Ríos, J, Girard Cuesy, M, Romero Camarena, D, Soberón Chávez, M. (2001). "Regulation of gene expression in response to oxygen in Rhizobium etli: Role of FnrN in fixNOQP expression and in symbiotic nitrogen fixation". Journal Of Bacteriology. 183(24):6999-7006. [doi:10.1128/JB.183.24.6999-7006.2001]11717256
2000Girard Cuesy, M, Brom Klanner, S, Dávalos Rodríguez, A, López, O, Soberón Chávez, M, Romero Camarena, D. (2000). "Differential regulation of fixN-reiterated genes in Rhizobium etli by a novel fixL-fixK cascade". Molecular Plant-Microbe Interactions. 13(12):1283-1292. [doi:10.1094/MPMI.2000.13.12.1283]11106020
2000Flores, M, Mavingui, P, Perret, X, Broughton, W, Romero, D, Hernandez, G, Davila, G, Palacios, R. (2000). "Prediction, identification, and artificial selection of DNA rearrangements in Rhizobium: Toward a natural genomic design". PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 97(16):9138-9143. [doi:10.1073/pnas.97.16.9138]10922070
2000Brom, S, Garcia-de los Santos, A, Cervantes, L, Palacios, R, Romero, D. (2000). "In Rhizobium etli symbiotic plasmid transfer, nodulation competitivity and cellular growth require interaction among different replicons". Plasmid. 44(1):34-43. [doi:10.1006/plas.2000.1469]10873525
2000Martinez-Salazar, J, Romero, D. (2000). "Role of the ruvB gene in homologous and homeologous recombination in Rhizobium etli". Gene. 243(1-2):125-131. [doi:10.1016/S0378-1119(99)00548-X]10675620
2000Reyes, J, Tabche, M, Morera, C, Girard Cuesy, M, Romero Camarena, D, Krol, E, Miranda, J, Soberón Chávez, M. (2000). "Expression pattern of Rhizobium etli ccmIEFH genes involved in c-type cytochrome maturation". Gene. 250(1-2):149-157. [doi:10.1016/S0378-1119(00)00176-1]10854788
2000Valencia-Morales, E, Romero, D. (2000). "Recombination enhancement by replication (RER) in Rhizobium etli". Genetics. 154(3):971-983. 10757747
1999Wang, E, Roel, M, Garcia-de los Santos, A, Martinez-Romero, J, Cevallos, M, Martinez-Romero, E. (1999). "Rhizobium etli bv. mimosae, a novel biovar isolated from Mimosa affinis". INTERNATIONAL JOURNAL OF SYSTEMATIC BACTERIOLOGY. 49(4):1479-1491. [doi:10.1099/00207713-49-4-1479]10555329
1999Brom Klanner, S, Romero Camarena, D. (1999). "Plasmid biology 98: international symposium on plasmid biology". Plasmid. 41(2):141-177. 10087219
1999Corvera Poire, A, Prome, D, Prome, J, Martínez Romero, M, Romero Camarena, D. (1999). "The nolL gene from Rhizobium etli determines nodulation efficiency by mediating the acetylation of the fucosyl residue in the nodulation factor". Molecular Plant-Microbe Interactions. 12(3):236-246. [doi:10.1094/MPMI.1999.12.3.236]10065560
1999Barrón, C, Gómez, S, Romero, D, Saavedra, A. (1999). "A genetic algorithm for Lennard-Jones atomic clusters". Applied Mathematics Letters. 12(7):85-90. [doi:10.1016/S0893-9659(99)00106-8]
1999Romero, D, Martinez-Salazar, J, Ortiz, E, Rodriguez, C, Valencia-Morales, E. (1999). "Repeated sequences in bacterial chromosomes and plasmids: A glimpse from sequenced genomes". Research In Microbiology. 150(9-10):735-743. [doi:10.1016/S0923-2508(99)00119-9]10673011
1999Romero, D, Barrón, C, Gómez, S. (1999). "The optimal geometry of Lennard-Jones clusters: 148-309". COMPUT PHYS COMMUN. 123(1-3):87-96. [doi:10.1016/s0010-4655(99)00259-3]
1999Thieffry, D, Romero, D. (1999). "The modularity of biological regulatory networks.". Biosystems. 50(1):49-59. [doi:10.1016/s0303-2647(98)00087-2]10235650
1998Rodriguez, C, Romero, D. (1998). "Multiple recombination events maintain sequence identity among members of the nitrogenase multigene family in Rhizobium etli". Genetics. 149(2):785-794. 9611191
1998Mavingui, P, Laeremans, T, Flores, M, Romero, D, Martinez-Romero, E, Palacios, R. (1998). "Genes essential for nod factor production and nodulation are located on a symbiotic amplicon (AMPRtrCFN299pc60) in Rhizobium tropici". Journal Of Bacteriology. 180(11):2866-2874. [doi:10.1128/JB.180.11.2866-2874.1998]9603874
1997Barrón, C, Gómez, S, Romero, D. (1997). "Lower energy icosahedral atomic clusters with incomplete core". Applied Mathematics Letters. 10(5):25-28. [doi:10.1016/S0893-9659(97)00078-5]
1997GarciadelosSantos, A, Brom, S. (1997). "Characterization of two plasmid-borne lps beta loci of Rhizobium etli required for lipopolysaccharide synthesis and for optimal interaction with plants". Molecular Plant-Microbe Interactions. 10(7):891-902. [doi:10.1094/MPMI.1997.10.7.891]9304861
1997Romero, D, Sánchez-Flores, A. (1997). "Omnipotence in stretchable two-dimensional scaling". MATH SOC SCI. 33(1):1-21. [doi:10.1016/S0165-4896(96)00817-7]
1997Mavingui Malonda, A, Flores López, M, Romero Camarena, D, Martínez Romero, M, Palacios de la Lama, R. (1997). "Generation of Rhizobium Strains with Improved Symbiotic Properties by Random Dna Amplification (RDA)". Nature Biotechnology. 15(6):564-569. [doi:10.1038/nbt0697-564]9181580
1997Romero Camarena, D, Palacios de la Lama, R. (1997). "Gene amplification and genomic plasticity in prokaryotes". Annual Review of Genetics. 31():91-111. [doi:10.1146/annurev.genet.31.1.91]9442891
1997MirandaRios, J, Morera, C, Taboada, H, Davalos, A, Encarnacion, S, Mora, J, Soberon, M. (1997). "Expression of thiamin biosynthetic genes (thiCOGE) and production of symbiotic terminal oxidase cbb(3), in Rhizobium etli". Journal Of Bacteriology. 179(22):6887-6893. [doi:10.1128/jb.179.22.6887-6893.1997]9371431
1996Romero, D, Martinez, L, Fionova, L. (1996). "Computer simulation of grain boundary spatial distribution in a three-dimensional polycrystal with cubic structure". Acta Mater. 44(1):391-402. [doi:10.1016/1359-6454(95)00142-X]
1996Barrón, C, Gómez, S, Romero, D. (1996). "Archimedean polyhedron structure yields a lower energy atomic cluster". Applied Mathematics Letters. 9(5):75-78. [doi:10.1016/0893-9659(96)00076-6]
1996Valderrama, B, Davalos, A, Girard, L, Morett, E, Mora, J. (1996). "Regulatory proteins and CIS-acting elements involved in the transcriptional control of Rhizobium etli reiterated nifH genes". Journal Of Bacteriology. 178(11):3119-3126. [doi:10.1128/jb.178.11.3119-3126.1996]8655489
1996Santos, A, Brom, S, Romero, D. (1996). "Rhizobium plasmids in bacteria-legume interactions". World Journal Of Microbiology & Biotechnology. 12(2):119-125. [doi:10.1007/BF00364676]24415159
1996Dunn, M, Encarnacion, S, Araiza, G, Vargas, M, Davalos, A, Peralta, H, Mora, Y, Mora, J. (1996). "Pyruvate carboxylase from Rhizobium etli: Mutant characterization, nucleotide sequence, and physiological role". Journal Of Bacteriology. 178(20):5960-5970. [doi:10.1128/jb.178.20.5960-5970.1996]8830693
1996Girard, L, Valderrama, B, Palacios, R, Romero, D, Davila, G. (1996). "Transcriptional activity of the symbiotic plasmid of Rhizobium etli is affected by different environmental conditions". MICROBIOLOGY-SGM. 142(10):2847-2856. [doi:10.1099/13500872-142-10-2847]
1995ROMERO, D, MARTINEZSALAZAR, J, GIRARD, L, BROM, S, DAVILA, G, PALACIOS, R, FLORES, M, RODRIGUEZ, C. (1995). "Discrete amplifiable regions (amplicons) in the symbiotic plasmid of Rhizobium etli CFN42". Journal Of Bacteriology. 177(4):973-980. [doi:10.1128/jb.177.4.973-980.1995]7860608
1994Garduño- Juárez, R, Romero, D. (1994). "Heuristic methods in conformational space search of peptides". THEOCHEM-J MOL STRUC. 308(C):115-123. [doi:10.1016/0166-1280(94)80097-9]
1993Flores López, M, Brom Klanner, S, Stepkowsky, T, Girard Cuesy, M, Dávila Ramos, J, Romero Camarena, D, Palacios de la Lama, R. (1993). "Gene amplification in Rhizobium: Identification and in vivo cloning of discrete amplifiable DNA regions (amplicons) from Rhizobium leguminosarum biovar phaseoli". PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 90(11):4932-4936. [doi:10.1073/pnas.90.11.4932]8506337
1992BROM, S, DELOSSANTOS, A, STEPKOWSKI, T, FLORES, M, DAVILA, G, ROMERO, D, PALACIOS, R. (1992). "DIFFERENT PLASMIDS OF Rhizobium-leguminosarum BV phaseoli ARE REQUIRED FOR OPTIMAL SYMBIOTIC PERFORMANCE". Journal Of Bacteriology. 174(16):5183-5189. [doi:10.1128/jb.174.16.5183-5189.1992]1644746
1992Morales, L, Garduñojuárez, R, Romero, D. (1992). "The multiple-minima problem in small peptides revisited. The Threshold Accepting approach.". J BIOMOL STRUCT DYN. 9(5):951-957. [doi:10.1080/07391102.1992.10507969]1524708
1991VAZQUEZ, M, DAVALOS, A, DELASPENAS, A, SANCHEZ, F, QUINTO, C. (1991). "NOVEL ORGANIZATION OF THE COMMON NODULATION GENES IN Rhizobium-leguminosarum BV. phaseoli STRAINS". Journal Of Bacteriology. 173(3):1250-1258. [doi:10.1128/jb.173.3.1250-1258.1991]1991718
1991Morales, L, Garduñojuárez, R, Romero, D. (1991). "Applications of simulated annealing to the multiple-minima problem in small peptides.". J BIOMOL STRUCT DYN. 8(4):721-735. [doi:10.1080/07391102.1991.10507841]2059338
1991MORALES, L, GARDUNOJUAREZ, R, Romero, D. (1991). "APPLICATIONS OF SIMULATED ANNEALING TO THE MULTIPLE-MINIMA PROBLEM IN SMALL PEPTIDES". J BIOMOL STRUCT DYN. 8(4):721-735. 2059338
1991ROMERO, D, BROM, S, MARTINEZSALAZAR, J, GIRARD, M, FLORES, M, DURAN, L, DELOSSANTOS, A, PALACIOS, R, DAVILA, G. (1991). "GEONOMIC INSTABILITY IN Rhizobium - FRIEND OR FOE". Advances In Molecular Genetics Of Plant-Microbe Interactions, Vol 1. 10():211-214.
1991GIRARD, M, FLORES, M, BROM, S, ROMERO, D, PALACIOS, R, DAVILA, G. (1991). "Structural complexity of the symbiotic plasmid of Rhizobium leguminosarum bv. phaseoli". Journal Of Bacteriology. 173(8):2411-2419. [doi:10.1128/jb.173.8.2411-2419.1991]2013564
1991MARTINEZSALAZAR, J, ROMERO, D, GIRARD, M, DAVILA, G. (1991). "Molecular cloning and characterization of the recA gene of Rhizobium phaseoli and construction of recA mutants". Journal Of Bacteriology. 173(10):3035-3040. [doi:10.1128/jb.173.10.3035-3040.1991]2022610
1991ROMERO, D, BROM, S, MARTINEZSALAZAR, J, GIRARD, M, PALACIOS, R, DAVILA, G. (1991). "Amplification and deletion of a nod-nif region in the symbiotic plasmid of Rhizobium phaseoli". Journal Of Bacteriology. 173(8):2435-2441. [doi:10.1128/jb.173.8.2435-2441.1991]2013567
1991BROM, S, DELOSSANTOS, A, DELOURDESGIRARD, M, DAVILA, G, PALACIOS, R, ROMERO, D. (1991). "High-frequency rearrangements in Rhizobium leguminosarum bv. phaseoli plasmids". Journal Of Bacteriology. 173(3):1344-1346. [doi:10.1128/jb.173.3.1344-1346.1991]1991727
1990MARTINEZ, E, ROMERO, D, PALACIOS, R. (1990). "The Rhizobium Genome". CRITICAL REVIEWS IN PLANT SCIENCES. 9(1):59-93. [doi:10.1080/07352689009382282]
1990Romero, D. (1990). "Easy transportation-like problems on K-dimensional arrays". J OPTIMIZ THEORY APP. 66(1):137-147. [doi:10.1007/BF00940537]
1990Romero, D, Sánchez-Flores, A. (1990). "Methods for the one-dimensional space allocation problem". COMPUT OPER RES. 17(5):465-473. [doi:10.1016/0305-0548(90)90051-8]
1988Flores, M, González, V, Pardo, M, Leija, A, Martínez, E, Romero, D, Piñero, D, Dávila, G, Palacios, R. (1988). "Genomic instability in Rhizobium phaseoli.". Journal Of Bacteriology. 170(3):1191-1196. [doi:10.1128/jb.170.3.1191-1196.1988]3343217
1988MARTINEZ, E, FLORES, M, BROM, S, ROMERO, D, DAVILA, G, PALACIOS, R. (1988). "Rhizobium phaseoli: A molecular genetics view". PLANT AND SOIL. 108(1):179-184. [doi:10.1007/BF02370113]
1988BROM, S, MARTINEZ, E, DAVILA, G, PALACIOS, R. (1988). "NARROW-HOST-RANGE AND BROAD-HOST-RANGE SYMBIOTIC PLASMIDS OF Rhizobium SPP STRAINS THAT NODULATE Phaseolus-VULGARIS". Applied And Environmental Microbiology. 54(5):1280-1283. [doi:10.1128/AEM.54.5.1280-1283.1988]16347637
1988ROMERO, D, Singleton, P, SEGOVIA, L, MORETT, E, Bohlool, B, PALACIOS, R, DAVILA, G. (1988). "EFFECT OF NATURALLY-OCCURRING nif REITERATIONS ON SYMBIOTIC EFFECTIVENESS IN Rhizobium-phaseoli". Applied And Environmental Microbiology. 54(3):848-850. [doi:10.1128/AEM.54.3.848-850.1988]16347593
1987FLORES, M, GONZALEZ, V, BROM, S, MARTINEZ, E, PINERO, D, ROMERO, D, DAVILA, G, PALACIOS, R. (1987). "Reiterated DNA sequences in Rhizobium and Agrobacterium spp.". Journal Of Bacteriology. 169(12):5782-5788. [doi:10.1128/jb.169.12.5782-5788.1987]3450286
1983DAVILA, G, BROM, S, MORA, Y, PALACIOS, R, MORA, J. (1983). "GENETIC AND BIOCHEMICAL-CHARACTERIZATION OF GLUTAMINE-SYNTHETASE FROM NEUROSPORA-CRASSA GLUTAMINE AUXOTROPHS AND THEIR REVERTANTS". Journal Of Bacteriology. 156(3):993-1000. 6139363