Center for Genome Regulation

A FONDAP Center of Excellence

"Exploring the Genomic Landscape of Chile"

2016 Publications

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1.     Cordero N, Maza F, Navea-Perez H, Aravena A, Marquez-Fontt B, Navarrete P, Figueroa G, González M, Latorre M and Reyes-Jara A. 2016. Different Transcriptional Responses from Slow and Fast Growth Rate Strains of Listeria monocytogenes Adapted to Low Temperature. Frontiers in Microbiology 7 229 1-9

     2.     Bordron P, Latorre M, Cortés MP, González M, Thiele S, Siegel A, Maass A, Eveillard D. 2016. Putative bacterial interactions from metagenomic knowledge with an integrative systems ecology approach     Microbiology open. 5(1):106-17

     3.     Mandakovic D, Trigo C, Andrade D, Riquelme B, Gómez-Lillo G, Soto-Liebe K, Díez B, Vásquez M. 2016. CyDiv, a Conserved and Novel Filamentous Cyanobacterial Cell Division Protein Involved in Septum Localization.     Frontiers in Microbiology. 7     94 1-11

     4.     Meneses, C., Ulloa-Zepeda, L., Cifuentes-Esquivel, A., Infante, R., Cantin, C., Batlle, I., Arús, P., Eduardo, I. 2016. A codominant diagnostic marker for the slow ripening trait in peach     Molecular Breeding 36 (77)     1-4.

     5.     Guerrero-Araya, E., Plaza-Garrido, A., Díaz-Yañez, F., Pizarro-Guajardo, M., Valenzuela, S., Meneses, C., Gil F. and Paredes-Sabja, D. 2016. Genome sequence of Clostridium paraputrificum 373-A1 isolated in Chile from a patient infected with Clostridium difficile.     Genome Announcements     4(6)     e01178-16.

     6.     Nuñez I., Matute T., Del Valle I., Kan A., Choksi A.,  Endy D., Haseloff J., Rudge T., and  Federici F. 2016. Artificial symmetry-breaking for morphogenetic engineering bacterial colonies. ACS Synthetic Biology (In Press).

     7.     Acuña M., Martínez P., Moraga C., He X., Moraga M., Hunter B., Nuernberg P., Gutiérrez RA., González M., Schuchman EH., Santos JL., Miquel JF., Mabe P., Zanlungo S. 2016. Epidemiological, clinical and biochemical characterization of the p.(Ala359Asp) SMPD1 variant causing Niemann–Pick disease type B. European Journal of Human Genetics 24:208-213.

     8.     Latorre M, Ehrenfeld N, Cortés MP, Travisany D, Budinich M, Aravena A, González M, Bobadilla-Fazzini RA, Parada P, Maass A. 2016. Global transcriptional responses of Acidithiobacillus ferrooxidans Wenelen under different sulfide minerals. Bioresource Technology 200     29-34.

     9.     V. Acuña, A. Aravena, C. Guziolowski, D. Eveillard, A. Siegel, A. Maass. 2016. Deciphering transcriptional regulations coordinating the response to environmental changes. BMC-Bioinformatics. 17:001-012.

     10.     Puelma T, Araus V, Canales J, Vidal EA, Cabello JM, Soto A, Gutiérrez RA. 2016. GENIUS: web server to predict local gene networks and key genes for biological functions. Bioinformatics. pii: btw702.

     11.     Dudakovic A, Camilleri ET, Riester SM, Paradise CR, Gluscevic M, O'Toole TM, Thaler R, Evans JM, Yan H, Subramaniam M, Hawse JR, Stein GS, Montecino MA, McGee-Lawrence ME, Westendorf JJ, van Wijnen AJ. 2016. Enhancer of Zeste Homolog 2 Inhibition Stimulates Bone Formation and Mitigates Bone Loss Due to Ovariectomy in Skeletally Mature Mice. J Biol Chem. 2016 Oct 10. pii: jbc.M116.740571.

     12.     Pei W, Huang SC, Xu L, Pettie K, Ceci ML, Sánchez M, Allende ML, Burgess SM. 2016. Loss of Mgat5a-mediated N-glycosylation stimulates regeneration in zebrafish. Cell Regen (Lond). 2016 Oct 20;5:3.

     13.     Del Pozo T, Gutiérrez-Garcia R, Latorre M, González M, Suazo M. 2016. Identification of reference genes for quantitative real-time PCR studies in human cell lines under copper and zinc exposure. Biometals. 2016 Oct;29(5):935-44.

     14.     Acuña M, Castro-Fernández V, Latorre M, Castro J, Schuchman EH, Guixé V, González M, Zanlungo S. 2016. Structural and functional analysis of the ASM p.Ala359Asp mutant that causes acid sphingomyelinase deficiency. Biochem Biophys Res Commun. 2016 Oct 21;479(3):496-501.

     15.     Sepulveda H, Aguilar R, Prieto CP, Bustos F, Aedo S, Lattus J, van Zundert B, Palma V, Montecino M. 2016. Epigenetic Signatures at the RUNX2-P1 and Sp7 Gene Promoters Control Osteogenic Lineage Commitment of Umbilical Cord-Derived Mesenchymal Stem Cells. J Cell Physiol. doi: 10.1002/jcp.25627.

     16.     Fuentes A, Ortiz J, Saavedra N, Salazar LA, Meneses C, Arriagada C. 2016. Reference gene selection for quantitative real-time PCR in Solanum lycopersicum L. inoculated with the mycorrhizal fungus Rhizophagus irregularis. Plant Physiol Biochem. 101:124-31.

     17.     Laporte D, Valdés N, González A, Sáez CA, Zúñiga A, Navarrete A, Meneses C, Moenne A. 2016. Copper-induced overexpression of genes encoding antioxidant system enzymes and metallothioneins involve the activation of CaMs, CDPKs and MEK1/2 in the marine alga Ulva compressa. Aquat Toxicol. 177:433-40.

     18.     Rodriguez-Furlán C, Salinas-Grenet H, Sandoval O, Recabarren C, Arraño-Salinas P, Soto-Alvear S, Orellana A, Blanco-Herrera F.  2016. The Root Hair Specific SYP123 Regulates the Localization of Cell Wall Components and Contributes to Rizhobacterial Priming of Induced Systemic Resistance. Front Plant Sci. 7:1081.

     19.     Temple H, Saez-Aguayo S, Reyes FC, Orellana A. 2016. The inside and outside: topological issues in plant cell wall biosynthesis and the roles of nucleotide sugar transporters. Glycobiology Aug 9. [Epub ahead of print] Review.

     20.     DebRoy S, Saldaña M, Travisany D, Montano A, Galloway-Peña J, Horstmann N, Yao H, González M, Maass A, Latorre M, Shelburne SA. 2016. A Multi-Serotype Approach Clarifies the Catabolite Control Protein A Regulon in the Major Human Pathogen Group A Streptococcus. Sci Rep. 6:32442.

     21.     Rudge TJ, Brown JR, Federici F, Dalchau N, Phillips A, Ajioka JW, Haseloff J. 2016. Characterization of Intrinsic Properties of Promoters. ACS Synth Biol. 5(1):89-98.

     22.     Grant PK, Dalchau N, Brown JR, Federici F, Rudge TJ, Yordanov B, Patange O, Phillips A, Haseloff J.  2016. Orthogonal intercellular signaling for programmed spatial behavior. Mol Syst Biol. 2016 Jan 25;12(1):849.

     23.     Yazaki J, Galli M, Kim AY, Nito K, Aleman F, Chang KN, Carvunis AR, Quan R, Nguyen H, Song L, Alvarez JM, Huang SS, Chen H, Ramachandran N, Altmann S, Gutiérrez RA, Hill DE, Schroeder JI, Chory J, LaBaer J, Vidal M, Braun P, Ecker JR. 2016. Mapping transcription factor interactome networks using HaloTag protein arrays. Proc Natl Acad Sci U S A. 113(29):E4238-47.

     24.     Rautengarten C, Ebert B, Liu L, Stonebloom S, Smith-Moritz AM, Pauly M, Orellana A, Scheller HV, Heazlewood JL. 2016. The Arabidopsis Golgi-localized GDP-L-fucose transporter is required for plant development. Nat Commun. 2016 Jul 6;7:12119. doi: 10.1038/ncomms12119.

     25.     Latorre M, Cortés MP, Travisany D, Di Genova A, Budinich M, Reyes-Jara A, Hödar C, González M, Parada P, Bobadilla-Fazzini RA, Cambiazo V, Maass A. 2016. The bioleaching potential of a bacterial consortium. Bioresour Technol. 2016 Jul 6;218:659-666. doi: 10.1016/j.biortech.2016.07.012.

     26.     Mandakovic D, Glasner B, Maldonado J, Aravena P, González M, Cambiazo V, Pulgar R. 2016. Genomic-Based Restriction Enzyme Selection for Specific Detection of Piscirickettsia salmonis by 16S rDNA PCR-RFLP. Front Microbiol. 2016 May 9;7:643. doi: 10.3389/fmicb.2016.00643.

     27.     Dominguez C, Zuñiga A, Hanna P, Hodar C, Gonzalez M, Cambiazo V. 2016. Target genes of Dpp/BMP signaling pathway revealed by transcriptome profiling in the early D.melanogaster embryo. Gene. 2016 Jul 7. pii: S0378-1119(16)30541-8. doi: 10.1016/j.gene.2016.07.015.

     28.     Simon S, Skůpa P, Viaene T, Zwiewka M, Tejos R, Klíma P, Čarná M, Rolčík J, De Rycke R, Moreno I, Dobrev PI, Orellana A, Zažímalová E, Friml J. PIN6 auxin transporter at endoplasmic reticulum and plasma membrane mediates auxin homeostasis and organogenesis in Arabidopsis. New Phytol. 2016 Jul;211(1):65-74.

     29.     Hossain MA, Henríquez-Valencia C, Gómez-Páez M, Medina J, Orellana A, Vicente-Carbajosa J, Zouhar J. Identification of Novel Components of the Unfolded Protein Response in Arabidopsis. Front Plant Sci. 2016 May 12;7:650.

     30.     Orellana A, Moraga C, Araya M, Moreno A. Overview of Nucleotide Sugar Transporter Gene Family Functions Across Multiple Species. J Mol Biol. 2016 May 31. pii: S0022-2836(16)30190-5. doi: 10.1016/j.jmb.2016.05.021.

     31.     Araus V, Vidal EA, Puelma T, Alamos S, Mieulet D, Guiderdoni E, Gutiérrez RA. 2016. Members of BTB gene family regulate negatively nitrate uptake and nitrogen use efficiency in Arabidopsis thaliana and Oryza sativa. Plant Physiol. pii: pp.01731.2015.

     32.     O'Brien JA, Vega A, Bouguyon E, Krouk G, Gojon A, Coruzzi G, Gutiérrez RA. 2016. Nitrate transport, sensing and responses in plants. Mol Plant. doi: 10.1016/j.molp.2016.05.004.

     33.     Aguilar R, Bustos FJ, Saez M, Rojas A, Allende ML, van Wijnen AJ, van Zundert B, Montecino M. 2016. Polycomb PRC2 complex mediates epigenetic silencing of a critical osteogenic master regulator in the hippocampus. BBA - Gene Regulatory Mechanisms. 1859(8):1043-55.

     34.     Pérez-Delgado CM, Moyano TC, García-Calderón M, Canales J, Gutiérrez RA, Márquez AJ, Betti M. 2016. Use of transcriptomics and co-expression networks to analyze the interconnections between nitrogen assimilation and photorespiratory metabolism. J Exp Bot. pii: erw170.

     35.     Muñoz-Espinoza C, Di Genova A, Correa J, Silva R, Maass A, González-Agüero M, Orellana A, Hinrichsen P. 2016. Transcriptome profiling of grapevine seedless segregants during berry development reveals candidate genes associated with berry weight. BMC Plant Biol. 16(1):104.

     36.     Thiaville PC, Legendre R, Rojas-Benítez D, Baudin-Baillieu A, Hatin I, Chalancon G, Glavic A, Namy O, de Crécy-Lagard V. 2016. Global translational impacts of the loss of the tRNA modification t6A in yeast. Microb Cell. 3(1):29-45.

     37.     Lopez CI, Saud KE, Aguilar R, Berndt FA, Cánovas J, Montecino M, Kukuljan M. 2016. The chromatin modifying complex CoREST/LSD1 negatively regulates Notch pathway during cerebral cortex development. Dev Neurobiol. 2016 Apr 25. doi: 10.1002/dneu.22397.

     38.     Alvarez C, Aravena A, Tapia T, Rozenblum E, Solís L, Corvalán A, Camus M, Alvarez M, Munroe D, Maass A, Carvallo P. 2016. Different Array CGH profiles within hereditary breast cancer tumors associated to BRCA1 expression and overall survival. BMC Cancer. 16(1):219

     39.     Sigbjørn Lien, Ben F. Koop, Simen R. Sandve, Jason R. Miller, Matthew P. Kent, Torfinn Nome, et al. (Di Genova A and Maass A, authors). 2016. The Atlantic salmon genome provides insights into rediploidization. Nature. doi:10.1038/nature17164.

     40.     Sánchez M, Ceci ML, Gutiérrez D, Anguita-Salinas C, Allende ML. 2016. Mechanosensory organ regeneration in zebrafish depends on a population of multipotent progenitor cells kept latent by Schwann cells. BMC Biology 14:27.

     41.     Chávez MN, Aedo G, Fierro FA, Allende ML, Egaña JT. 2016. Zebrafish as an Emerging Model Organism to Study Angiogenesis in Development and Regeneration. Front. Physiol. 7:56. doi: 10.3389/fphys.2016.00056.

     42.     Díaz FP, Frugone M, Gutiérrez RA, Latorre C. 2016. Nitrogen cycling in an extreme hyperarid environment inferred from δ(15)N analyses of plants, soils and herbivore diet. Sci Rep. 2016 Mar 9;6:22226. doi: 10.1038/srep22226.

     43.     Almeida AM, Urra C, Moraga C, Jego M, Flores A, Meisel L, González M, Infante R, Defilippi BG, Campos-Vargas R, Orellana A. 2016. Proteomic analysis of a segregant population reveals candidate proteins linked to mealiness in peach. J Proteomics. 2016 Jan 10;131:71-81.

     44.     Lienlaf M, Perez-Villarroel P, Knox T, Pabon M, Sahakian E, Powers J, Woan KV, Lee C, Cheng F, Deng S, Smalley KS, Montecino M, Kozikowski A, Pinilla-Ibarz J, Sarnaik A, Seto E, Weber J, Sotomayor EM, Villagra A. 2016. Essential role of HDAC6 in the regulation of PD-L1 in melanoma. Mol Oncol. 2016 Jan 6. pii: S1574-7891(15)00248-3.

     45.     Chávez MN, Schenk TL, Hopfner U, Centeno C, Machens H-G, Somlai-Schweiger I, Heinkenwalder M, Bono MR, Schwarz C, Allende ML, Nickelsen J, Egaña JT. 2016. Towards Autotrophic Tissue Engineering: Photosynthetic Gene Therapy for Tissue Regeneration. Biomaterials 75: 25-36.

     46.     Carrillo SA, Anguita-Salinas C, Peña OA, Morales RA, Muñoz-Sánchez S, Muñoz-Montecinos C, Paredes-Zúñiga S, Tapia K, Allende ML. 2016. Macrophage recruitment contributes to regeneration of mechanosensory hair cells in the zebrafish lateral line. J Cell Biochem 117(8):1880-9.

     47.     Yáñez JM, Naswa S, López ME, Bassini L, Correa K, Gilbey J, Bernatchez L, Norris A, Neira R, Lhorente JP, Schnable PS, Newman S, Mileham A, Deeb N, Di Genova A, Maass A. 2016. Genome-wide single nucleotide polymorphism (SNP) discovery in Atlantic salmon (Salmo salar): validation in wild and farmed American and European populations. Mol Ecol Resour. 2016 Feb 5. doi: 10.1111/1755-0998.12503.

     48.     Botelho JF, Smith-Paredes D, Soto-Acuña S, O'Connor J, Palma V, Vargas AO. 2016. Molecular development of fibular reduction in birds and its evolution from dinosaurs. Evolution. 70(3):543-54.