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Items: 1 to 20 of 52

1.

Intermediate-Salinity Systems at High Altitudes in the Peruvian Andes Unveil a High Diversity and Abundance of Bacteria and Viruses.

Castelán-Sánchez HG, Elorrieta P, Romoacca P, Liñan-Torres A, Sierra JL, Vera I, Batista-García RA, Tenorio-Salgado S, Lizama-Uc G, Pérez-Rueda E, Quispe-Ricalde MA, Dávila-Ramos S.

Genes (Basel). 2019 Nov 5;10(11). pii: E891. doi: 10.3390/genes10110891.

2.

Identification of functional signatures in the metabolism of the three cellular domains of life.

Escobar-Turriza P, Hernandez-Guerrero R, Poot-Hernández AC, Rodríguez-Vázquez K, Ramírez-Prado J, Pérez-Rueda E.

PLoS One. 2019 May 28;14(5):e0217083. doi: 10.1371/journal.pone.0217083. eCollection 2019.

3.

Dissecting the Repertoire of DNA-Binding Transcription Factors of the Archaeon Pyrococcus furiosus DSM 3638.

Denis A, Martínez-Núñez MA, Tenorio-Salgado S, Perez-Rueda E.

Life (Basel). 2018 Sep 21;8(4). pii: E40. doi: 10.3390/life8040040.

4.

Functional Prediction of Hypothetical Transcription Factors of Escherichia coli K-12 Based on Expression Data.

Flores-Bautista E, Cronick CL, Fersaca AR, Martinez-Nuñez MA, Perez-Rueda E.

Comput Struct Biotechnol J. 2018 Mar 27;16:157-166. doi: 10.1016/j.csbj.2018.03.003. eCollection 2018.

5.

Genome misclassification of Klebsiella variicola and Klebsiella quasipneumoniae isolated from plants, animals and humans.

Martínez-Romero E, Rodríguez-Medina N, Beltrán-Rojel M, Silva-Sánchez J, Barrios-Camacho H, Pérez-Rueda E, Garza-Ramos U.

Salud Publica Mex. 2018 Jan-Feb;60(1):56-62. doi: 10.21149/8149.

PMID:
29689657
6.

Abundance, diversity and domain architecture variability in prokaryotic DNA-binding transcription factors.

Perez-Rueda E, Hernandez-Guerrero R, Martinez-Nuñez MA, Armenta-Medina D, Sanchez I, Ibarra JA.

PLoS One. 2018 Apr 3;13(4):e0195332. doi: 10.1371/journal.pone.0195332. eCollection 2018.

7.

Characterization and distribution of GHRH, PACAP, TRH, SST and IGF1 mRNAs in the green iguana.

Ávila-Mendoza J, Pérez-Rueda E, Urban-Sosa V, Carranza M, Martínez-Moreno CG, Luna M, Arámburo C.

Gen Comp Endocrinol. 2018 Jan 1;255:90-101. doi: 10.1016/j.ygcen.2017.09.027. Epub 2017 Sep 30.

PMID:
28974369
8.

Dissecting the protein architecture of DNA-binding transcription factors in bacteria and archaea.

Rivera-Gómez N, Martínez-Núñez MA, Pastor N, Rodriguez-Vazquez K, Perez-Rueda E.

Microbiology. 2017 Aug;163(8):1167-1178. doi: 10.1099/mic.0.000504. Epub 2017 Aug 17.

PMID:
28777072
9.

Tracing the Repertoire of Promiscuous Enzymes along the Metabolic Pathways in Archaeal Organisms.

Martínez-Núñez MA, Rodríguez-Escamilla Z, Rodríguez-Vázquez K, Pérez-Rueda E.

Life (Basel). 2017 Jul 13;7(3). pii: E30. doi: 10.3390/life7030030.

10.

Towards the complete proteinaceous regulome of Acinetobacter baumannii.

Casella LG, Weiss A, Pérez-Rueda E, Antonio Ibarra J, Shaw LN.

Microb Genom. 2017 Mar 23;3(3):mgen000107. doi: 10.1099/mgen.0.000107. eCollection 2017 Mar.

11.

Identification of beta-Lactamases and beta-Lactam-Related Proteins in Human Pathogenic Bacteria using a Computational Search Approach.

Brambila-Tapia AJL, Perez-Rueda E, Barrios H, Dávalos-Rodríguez NO, Dávalos-Rodríguez IP, Cardona-Muñoz EG, Salazar-Páramo M.

Curr Microbiol. 2017 Aug;74(8):915-920. doi: 10.1007/s00284-017-1265-3. Epub 2017 May 16.

PMID:
28508147
12.

Identification of DNA Methyltransferase Genes in Human Pathogenic Bacteria by Comparative Genomics.

Brambila-Tapia AJ, Poot-Hernández AC, Perez-Rueda E, Rodríguez-Vázquez K.

Indian J Microbiol. 2016 Jun;56(2):134-41. doi: 10.1007/s12088-015-0562-4. Epub 2015 Dec 31.

13.

Identification and in silico characterization of two novel genes encoding peptidases S8 found by functional screening in a metagenomic library of Yucatán underground water.

Apolinar-Hernández MM, Peña-Ramírez YJ, Pérez-Rueda E, Canto-Canché BB, De Los Santos-Briones C, O'Connor-Sánchez A.

Gene. 2016 Nov 15;593(1):154-161. doi: 10.1016/j.gene.2016.08.009. Epub 2016 Aug 10.

PMID:
27522038
14.

Transcriptomic analysis of the process of biofilm formation in Rhizobium etli CFN42.

Reyes-Pérez A, Vargas Mdel C, Hernández M, Aguirre-von-Wobeser E, Pérez-Rueda E, Encarnacion S.

Arch Microbiol. 2016 Nov;198(9):847-60. doi: 10.1007/s00203-016-1241-5. Epub 2016 May 25.

PMID:
27226009
15.

The alignment of enzymatic steps reveals similar metabolic pathways and probable recruitment events in Gammaproteobacteria.

Poot-Hernandez AC, Rodriguez-Vazquez K, Perez-Rueda E.

BMC Genomics. 2015 Nov 17;16:957. doi: 10.1186/s12864-015-2113-0.

16.

RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond.

Gama-Castro S, Salgado H, Santos-Zavaleta A, Ledezma-Tejeida D, Muñiz-Rascado L, García-Sotelo JS, Alquicira-Hernández K, Martínez-Flores I, Pannier L, Castro-Mondragón JA, Medina-Rivera A, Solano-Lira H, Bonavides-Martínez C, Pérez-Rueda E, Alquicira-Hernández S, Porrón-Sotelo L, López-Fuentes A, Hernández-Koutoucheva A, Del Moral-Chávez V, Rinaldi F, Collado-Vides J.

Nucleic Acids Res. 2016 Jan 4;44(D1):D133-43. doi: 10.1093/nar/gkv1156. Epub 2015 Nov 2.

17.

Distribution of putative xenogeneic silencers in prokaryote genomes.

Perez-Rueda E, Ibarra JA.

Comput Biol Chem. 2015 Oct;58:167-72. doi: 10.1016/j.compbiolchem.2015.06.007. Epub 2015 Jul 23.

PMID:
26247404
18.

The lifestyle of prokaryotic organisms influences the repertoire of promiscuous enzymes.

Martínez-Núñez MA, Rodríguez-Vázquez K, Pérez-Rueda E.

Proteins. 2015 Sep;83(9):1625-31. doi: 10.1002/prot.24847. Epub 2015 Jul 21.

PMID:
26109005
19.

The functional landscape bound to the transcription factors of Escherichia coli K-12.

Pérez-Rueda E, Tenorio-Salgado S, Huerta-Saquero A, Balderas-Martínez YI, Moreno-Hagelsieb G.

Comput Biol Chem. 2015 Oct;58:93-103. doi: 10.1016/j.compbiolchem.2015.06.002. Epub 2015 Jun 6.

PMID:
26094112
20.

Comparison of Metabolic Pathways in Escherichia coli by Using Genetic Algorithms.

Ortegon P, Poot-Hernández AC, Perez-Rueda E, Rodriguez-Vazquez K.

Comput Struct Biotechnol J. 2015 Apr 9;13:277-85. doi: 10.1016/j.csbj.2015.04.001. eCollection 2015.

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