Rodrigo A. Gutierrez Laboratory - P. Universidad Catolica de Chile

Publications

1.- Morales P , Gajardo F , Valdivieso C , Valladares MA , Di Genova A , Orellana A , Gutiérrez RA , González M , Montecino M , Maass A , Méndez MA , Allende ML (2024). Genomes of the Orestias pupfish from the Andean Altiplano shed light on their evolutionary history and phylogenetic relationships within Cyprinodontiformes. BMC Genomics 25 , 614 . PubMed

2.- Dussarrat T , Nilo-Poyanco R , Moyano TC , Prigent S , Jeffers TL , Díaz FP , Decros G , Audi L , Sondervan VM , Shen B , Araus V , Rolin D , Shasha D , Coruzzi GM , Gibon Y , Latorre C , Pétriacq P , Gutiérrez RA (2024). Phylogenetically diverse wild plant species use common biochemical strategies to thrive in the Atacama Desert. J Exp Bot 75 , 3596-3611 . PubMed

3.- Shanks CM , Rothkegel K , Brooks MD , Cheng CY , Alvarez JM , Ruffel S , Krouk G , Gutiérrez RA , Coruzzi GM (2024). Nitrogen sensing and regulatory networks: it's about time and space. Plant Cell 36 , 1482-1503 . PubMed

4.- Cerda A , Rivera M , Armijo G , Ibarra-Henriquez C , Reyes J , Blázquez-Sánchez P , Avilés J , Arce A , Seguel A , Brown AJ , Vásquez Y , Cortez-San Martín M , Cubillos FA , García P , Ferres M , Ramírez-Sarmiento CA , Federici F , Gutiérrez RA (2024). An Open One-Step RT-qPCR for SARS-CoV-2 detection. PLoS One 19 , e0297081 . PubMed

5.- Araya M , Villarreal P , Moyano T , Santos ARO , Díaz FP , Bustos-Jarufe A , Urbina K , Del Pino JE , Groenewald M , Gutiérrez RA , Rosa CA , Cubillos FA (2024). Nakazawaea atacamensis f.a., sp. nov. a novel nonconventional fermentative ascomycetous yeast species from the Atacama Desert. Yeast 41 , 52-63 . PubMed

6.- Díaz FP , Dussarrat T , Carrasco-Puga G , Colombié S , Prigent S , Decros G , Bernillon S , Cassan C , Flandin A , Guerrero PC , Gibon Y , Rolin D , Cavieres LA , Pétriacq P , Latorre C , Gutiérrez RA (2024). Ecological and metabolic implications of the nurse effect of Maihueniopsis camachoi in the Atacama Desert. New Phytol 241 , 1074-1087 . PubMed

7.- Pereyra ME , Costigliolo Rojas C , Jarrell AF , Hovland AS , Snipes SA , Nagpal P , Alabadí D , Blázquez MA , Gutiérrez RA , Reed JW , Gray WM , Casal JJ (2023). PIF4 enhances the expression of SAUR genes to promote growth in response to nitrate. Proc Natl Acad Sci U S A 120 , e2304513120 . PubMed

8.- Chaput V , Li J , Séré D , Tillard P , Fizames C , Moyano T , Zuo K , Martin A , Gutiérrez RA , Gojon A , Lejay L (2023). Characterization of the signalling pathways involved in the repression of root nitrate uptake by nitrate in Arabidopsis thaliana. J Exp Bot 74 , 4244-4258 . PubMed

9.- Mandakovic D , Aguado-Norese C , García-Jiménez B , Hodar C , Maldonado JE , Gaete A , Latorre M , Wilkinson MD , Gutiérrez RA , Cavieres LA , Medina J , Cambiazo V , Gonzalez M (2023). Testing the stress gradient hypothesis in soil bacterial communities associated with vegetation belts in the Andean Atacama Desert. Environ Microbiome 18 , 24 . PubMed

10.- Kobayashi S , Maldonado JE , Gaete A , Araya I , Aguado-Norese C , Cumplido N , Díaz S , Espinoza A , Fernández E , Gajardo F , González-Ordenes F , Hauyon K , Maldonado P , Maldonado R , Pochet I , Riveros A , Sandoval P , Sepúlveda-González A , Stuardo C , Tapia-Reyes P , Thornton C , Undurraga S , Varas M , Valdivieso C , Gutiérrez RA , Orellana A , Montecino M , Maass A , González M , Allende ML , Hodar C , Irles P (2023). DNA sequencing in the classroom: complete genome sequence of two earwig (Dermaptera; Insecta) species. Biol Res 56 , 6 . PubMed

11.- Pacheco JM , Song L , Kuběnová L , Ovečka M , Berdion Gabarain V , Peralta JM , Lehuedé TU , Ibeas MA , Ricardi MM , Zhu S , Shen Y , Schepetilnikov M , Ryabova LA , Alvarez JM , Gutiérrez RA , Grossmann G , Šamaj J , Yu F , Estevez JM (2023). Cell surface receptor kinase FERONIA linked to nutrient sensor TORC signaling controls root hair growth at low temperature linked to low nitrate in Arabidopsis thaliana. New Phytol 238 , 169-185 . PubMed

12.- Lamig L , Moreno S , Álvarez JM , Gutiérrez RA (2022). Molecular mechanisms underlying nitrate responses in plants. Curr Biol 32 , R433-R439 . PubMed

13.- Dussarrat T , Prigent S , Latorre C , Bernillon S , Flandin A , Díaz FP , Cassan C , Van Delft P , Jacob D , Varala K , Joubes J , Gibon Y , Rolin D , Gutiérrez RA , Pétriacq P (2022). Predictive metabolomics of multiple Atacama plant species unveils a core set of generic metabolites for extreme climate resilience. New Phytol 234 , 1614-1628 . PubMed

14.- Maldonado JE , Gaete A , Mandakovic D , Aguado-Norese C , Aguilar M , Gutiérrez RA , González M (2022). Partners to survive: Hoffmannseggia doellii root-associated microbiome at the Atacama Desert. New Phytol 234 , 2126-2139 . PubMed

15.- Swift J , Alvarez JM , Araus V , Gutiérrez RA , Coruzzi GM (2020). Nutrient dose-responsive transcriptome changes driven by Michaelis-Menten kinetics underlie plant growth rates. Proc Natl Acad Sci U S A 117 , 12531-12540 . PubMed

16.- Contreras-Lopez O, Vidal EA, Riveras E, Alvarez JM, Moyano TC, Sparks EE, Medina J, Pasquino A, Benfey PN, Coruzzi GM, Gutiérrez RA (2022). Spatiotemporal analysis identifies ABF2 and ABF3 as key hubs of endodermal response to nitrate. Proc Natl Acad Sci U S A 119. PubMed

17.- Di Genova A, Nardocci G, Maldonado-Agurto R, Hodar C, Valdivieso C, Morales P, Gajardo F, Marina R, Gutiérrez RA, Orellana A, Cambiazo V, Gonzalez M, Glavic A, Mendez MA, Maass A, Allende ML, Montecino MA (2022). Genome sequencing and transcriptomic analysis of the Andean killifish Orestias ascotanensis reveals adaptation to high-altitude aquatic life. Genomics 114, 305-315. PubMed

18.- Eshel G, Araus V, Undurraga S, Soto DC, Moraga C, Montecinos A, Moyano T, Maldonado J, Diaz FP, Varala K, Nelson CW, Contreras-Lopez O, Pal-Gabor H, Kraiser T, Carrasco-Puga G, Nilo-Poyanco R, Zegar CM, Orellana A, Montecino M, Maass A, Allende ML, DeSalle R, Stevenson DW, Gonzalez M, Latorre C, Coruzzi GM, Gutiérrez RA (2021). Plant ecological genomics at the limits of life in the Atacama Desert. Proc Natl Acad Sci U S A 118. PubMed

19.- Gonzalez-Martin A, Moyano T, Gutierrez DA, Carvajal FJ, Cerpa W, Hanley JG, Gutiérrez RA, Alvarez AR (2021). c-Abl regulates a synaptic plasticity-related transcriptional program involved in memory and learning. Prog Neurobiol 205, 102122. PubMed

20.- Moyano TC, Gutiérrez RA, Alvarez JM (2021). Genomic Footprinting Analyses from DNase-seq Data to Construct Gene Regulatory Networks. Methods Mol Biol 2328, 25-46. PubMed

21.- Vega A, Fredes I, O'Brien J, Shen Z, Otvos K, Abualia R, Benkova E, Briggs SP, Gutiérrez RA (2021). Nitrate triggered phosphoproteome changes and a PIN2 phosphosite modulating root system architecture. EMBO Rep 22, e51813. PubMed

22.- Ruffel S, Chaput V, Przybyla-Toscano J, Fayos I, Ibarra C, Moyano T, Fizames C, Tillard P, O'Brien JA, Gutiérrez RA, Gojon A, Lejay L (2021). Genome-wide analysis in response to nitrogen and carbon identifies regulators for root AtNRT2 transporters. Plant Physiol 186, 696-714. PubMed

23.- Carrasco-Puga G, Díaz FP, Soto DC, Hernández-Castro C, Contreras-López O, Maldonado A, Latorre C, Gutiérrez RA (2021). Revealing hidden plant diversity in arid environments Ecography , 98-111. PubMed

24.- Herrera-Vasquez A, Fonseca A, Ugalde JM, Lamig L, Seguel A, Moyano TC, Gutiérrez RA, Salinas P, Vidal EA, Holuigue L (2021). TGA class II transcription factors are essential to restrict oxidative stress in response to UV-B stress in Arabidopsis. J Exp Bot 72, 1891-1905. PubMed

25.- Otvos K, Marconi M, Vega A, O'Brien J, Johnson A, Abualia R, Antonielli L, Montesinos JC, Zhang Y, Tan S, Cuesta C, Artner C, Bouguyon E, Gojon A, Friml J, Gutiérrez RA, Wabnik K, Benkova E (2021). Modulation of plant root growth by nitrogen source-defined regulation of polar auxin transport. EMBO J 40, e106862. PubMed

26.- Zuniga LM, Andrade JC, Fabrega-Gueren F, Orihuela PA, Velasquez EV, Vidal EA, Gutiérrez RA, Morales P, Gomez-Silva B, Croxatto HB (2021). Mating induces early transcriptional response in the rat endosalpinx: the role of TNF and RA. Reproduction 161, 43-59. PubMed

27.- Dussarrat T, Decros G, Díaz FP, Gibon Y, Latorre C, Rolin D, Gutiérrez RA, Pétriacq P (2021). Another Tale from the Harsh World: How Plants Adapt to Extreme Environments Annual Plant Reviews online. 7, 551-603. PubMed

28.- Guajardo L, Aguilar R, Bustos FJ, Nardocci G, Gutiérrez RA, van Zundert B, Montecino M (2020). Downregulation of the Polycomb-Associated Methyltransferase Ezh2 during Maturation of Hippocampal Neurons Is Mediated by MicroRNAs Let-7 and miR-124. Int J Mol Sci 21. PubMed

29.- Wozniak A, Cerda A, Ibarra-Henriquez C, Sebastian V, Armijo G, Lamig L, Miranda C, Lagos M, Solari S, Guzman AM, Quiroga T, Hitschfeld S, Riveras E, Ferres M, Gutiérrez RA, Garcia P (2020). A simple RNA preparation method for SARS-CoV-2 detection by RT-qPCR. Sci Rep 10, 16608. PubMed

30.- Vidal EA, Alvarez JM, Araus V, Riveras E, Brooks MD, Krouk G, Ruffel S, Lejay L, Crawford NM, Coruzzi GM, Gutiérrez RA, Vidal EA, Alvarez JM, Araus V, Riveras E, Brooks M, Krouk G, Ruffel S, Lejay L, Crawford N, Coruzzi GM, Gutiérrez RA (2020). Nitrate in 2020: Thirty Years from Transport to Signaling Networks.Nitrate 2020: Thirty years from transport to signaling networks. Plant CellPlant Cell 32, 2094-2119. PubMed

31.- Swift J, Alvarez JM, Araus V, Gutiérrez RA, Coruzzi GM, Swift J, Alvarez JM, Araus V, Gutiérrez RA, Coruzzi GM (2020). Nutrient dose-responsive transcriptome changes driven by Michaelis-Menten kinetics underlie plant growth rates.Nutrient dose-responsive transcriptome changes driven by Michaelis-Menten kinetics underlie plant growth rates. Proc Natl Acad Sci U S AProc Natl Acad Sci U S A 117117, 12531-1254012531-12540. PubMed

32.- Moreno S, Canales J, Hong L, Robinson D, Roeder AHK, Gutiérrez RA, Moreno S, Canales J, Hong L, Robinson D, Roeder AHK, Gutiérrez RA (2020). Nitrate Defines Shoot Size through Compensatory Roles for Endoreplication and Cell Division in Arabidopsis thaliana.Nitrate Defines Shoot Size through Compensatory Roles for Endoreplication and Cell Division in Arabidopsis thaliana. Curr BiolCurr Biol 3030, 1988-2000.e31988-2000.e3. PubMed

33.- Riveras E, Azocar L, Moyano TC, Ocares M, Molina H, Romero D, Roa JC, Valbuena JR, Gutiérrez RA, Miquel JF (2020). Transcriptomic profiles reveal differences in zinc metabolism, inflammation, and tight junction proteins in duodenum from cholesterol gallstone subjects. Sci Rep 10, 7448. PubMed

34.- Cruz N, Méndez T, Ramos P, Urbina D, Vega A, Gutiérrez RA, Moya-León MA, Herrera R (2019). Induction of PrMADS10 on the lower side of bent pine tree stems: potential role in modifying plant cell wall properties and wood anatomy. Sci Rep 9, 18981. PubMed

35.- Naulin PA, Armijo GI, Vega AS, Tamayo KP, Gras DE, de la Cruz J, Gutiérrez RA (2020). Nitrate Induction of Primary Root Growth Requires Cytokinin Signaling in Arabidopsis thaliana. Plant Cell Physiol 61, 342-352. PubMed

36.- Wood, J, Díaz, F, Latorre, C, Wilmshurst, J, Burge, O, González, F, Gutiérrez RA (2019). Ancient parasite DNA from late Quaternary Atacama Desert rodent middens. Quat. Sci Rev 226, 106031.

37.- Vega A, O'Brien JA, Gutiérrez RA (2019). Nitrate and hormonal signaling crosstalk for plant growth and development. Curr Opin Plant Biol 52, 155-163. PubMed

38.- Alvarez JM, Moyano TC, Zhang T, Gras DE, Herrera FJ, Araus V, O'Brien JA, Carrillo L, Medina J, Vicente-Carbajosa J, Jiang J, Gutiérrez RA (2019). Local Changes in Chromatin Accessibility and Transcriptional Networks Underlying the Nitrate Response in Arabidopsis Roots. Mol Plant 12, 1545-1560. PubMed

39.- Pérez-Palma E, Bustos BI, Lal D, Buch S, Azocar L, Toliat MR, Lieb W, Franke A, Hinz S, Burmeister G, von Shönfels W, Schafmayer C, Ahnert P, Völzke H, Völker U, Homuth G, Lerch MM, Puschel K, Gutiérrez RA, Hampe J, Nürnberg P, Miquel JF, De Ferrari GV (2020). Copy number variants in lipid metabolism genes are associated with gallstones disease in men. Eur J Hum Genet 28, 264-273. PubMed

40.- Falter-Braun P, Brady S, Gutiérrez RA, Coruzzi GM, Krouk G (2019). iPlant Systems Biology (iPSB): An International Network Hub in the Plant Community. Mol Plant 12, 727-730. PubMed

41.- Brooks MD, Cirrone J, Pasquino AV, Alvarez JM, Swift J, Mittal S, Juang CL, Varala K, Gutiérrez RA, Krouk G, Shasha D, Coruzzi GM (2019). Network Walking charts transcriptional dynamics of nitrogen signaling by integrating validated and predicted genome-wide interactions. Nat Commun 10, 1569. PubMed

42.- Vidal EA, Moyano TC, Bustos BI, Perez-Palma E, Moraga C, Riveras E, Montecinos A, Azocar L, Soto DC, Vidal M, Di Genova A, Puschel K, Nurnberg P, Buch S, Hampe J, Allende ML, Cambiazo V, Gonzalez M, Hodar C, Montecino M, Munoz-Espinoza C, Orellana A, Reyes-Jara A, Travisany D, Vizoso P, Moraga M, Eyheramendy S, Maass A, De Ferrari GV, Miquel JF, Gutiérrez RA (2019). Whole Genome Sequence, Variant Discovery and Annotation in Mapuche-Huilliche Native South Americans. Sci Rep 9, 2132. PubMed

43.- Salazar, M, Valenzuela, D, Tironi, M, Gutiérrez RA (2019). The ambivalent regulator: the construction of a regulatory style for genetically modified crops in Chile Tapuya: Latin American Science, Technology and Society 2, 199-219. PubMed

44.- Diaz FP, Latorre C, Carrasco-Puga G, Wood JR, Wilmshurst JM, Soto DC, Cole TL, Gutiérrez RA (2019). Multiscale climate change impacts on plant diversity in the Atacama Desert. Glob Chang Biol 25, 1733-1745. PubMed

45.- Fernandez-Gomez B, Maldonado J, Mandakovic D, Gaete A, Gutiérrez RA, Maass A, Cambiazo V, Gonzalez M (2019). Bacterial communities associated to Chilean altiplanic native plants from the Andean grasslands soils. Sci Rep 9, 1042. PubMed

46.- Bustos BI, Perez-Palma E, Buch S, Azocar L, Riveras E, Ugarte GD, Toliat M, Nurnberg P, Lieb W, Franke A, Hinz S, Burmeister G, von Schonfels W, Schafmayer C, Volzke H, Volker U, Homuth G, Lerch MM, Santos JL, Puschel K, Bambs C, Roa JC, Gutiérrez RA, Hampe J, De Ferrari GV, Miquel JF (2019). Variants in ABCG8 and TRAF3 genes confer risk for gallstone disease in admixed Latinos with Mapuche Native American ancestry. Sci Rep 9, 772. PubMed

47.- Pollak B, Cerda A, Delmans M, Alamos S, Moyano T, West A, Gutiérrez RA, Patron NJ, Federici F, Haseloff J (2019). Loop assembly: a simple and open system for recursive fabrication of DNA circuits. New Phytol 222, 628-640. PubMed

48.- Fredes I, Moreno S, Diaz FP, Gutiérrez RA (2019). Nitrate signaling and the control of Arabidopsis growth and development. Curr Opin Plant Biol 47, 112-118. PubMed

49.- Wood JR, Diaz FP, Latorre C, Wilmshurst JM, Burge OR, Gutiérrez RA (2018). Plant pathogen responses to Late Pleistocene and Holocene climate change in the central Atacama Desert, Chile. Sci Rep 8, 17208. PubMed

50.- Mandakovic D, Rojas C, Maldonado J, Latorre M, Travisany D, Delage E, Bihouee A, Jean G, Diaz FP, Fernandez-Gomez B, Cabrera P, Gaete A, Latorre C, Gutiérrez RA, Maass A, Cambiazo V, Navarrete SA, Eveillard D, Gonzalez M (2018). Structure and co-occurrence patterns in microbial communities under acute environmental stress reveal ecological factors fostering resilience. Sci Rep 8, 5875. PubMed

51.- Contreras-Lopez O, Moyano TC, Soto DC, Gutiérrez RA (2018). Step-by-Step Construction of Gene Co-expression Networks from High-Throughput Arabidopsis RNA Sequencing Data. Methods Mol Biol 1761, 275-301. PubMed

52.- Gras DE, Vidal EA, Undurraga SF, Riveras E, Moreno S, Dominguez-Figueroa J, Alabadi D, Blazquez M, Medina J, Gutiérrez RA (2017). SMZ/SNZ and gibberellin signaling are required for nitrate-elicited delay of flowering time in Arabidopsis thaliana. J Exp Bot . PubMed

53.- Canales J, Contreras-Lopez O, Alvarez JM, Gutiérrez RA (2017). Nitrate induction of root hair density is mediated by TGA1/TGA4 and CPC transcription factors in Arabidopsis thaliana. Plant J 92, 305-316. PubMed

54.- Armijo G, Gutiérrez RA (2017). Emerging Players in the Nitrate Signaling Pathway. Mol Plant 10, 1019-1022. PubMed

55.- Undurraga SF, Ibarra-Henriquez C, Fredes I, Alvarez JM, Gutiérrez RA (2017). Nitrate signaling and early responses in Arabidopsis roots. J Exp Bot 68, 2541-2551. PubMed

56.- Friesner J, Assmann SM, Bastow R, Bailey-Serres J, Beynon J, Brendel V, Buell CR, Bucksch A, Busch W, Demura T, Dinneny JR, Doherty CJ, Eveland AL, Falter-Braun P, Gehan MA, Gonzales M, Grotewold E, Gutiérrez RA, Kramer U, Krouk G, Ma S, Markelz RJC, Megraw M, Meyers BC, Murray JAH, Provart NJ, Rhee S, Smith R, Spalding EP, Taylor C, Teal TK, Torii KU, Town C, Vaughn M, Vierstra R, Ware D, Wilkins O, Williams C, Brady SM (2017). The Next Generation of Training for Arabidopsis Researchers: Bioinformatics and Quantitative Biology. Plant Physiol 175, 1499-1509. PubMed

57.- 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, E4238-47. PubMed

58.- Puelma T, Araus V, Canales J, Vidal EA, Cabello JM, Soto A, Gutiérrez RA (2017). GENIUS: web server to predict local gene networks and key genes for biological functions. Bioinformatics 33, 760-761. PubMed

59.- 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 9, 837-56. PubMed

60.- Araus V, Vidal EA, Puelma T, Alamos S, Mieulet D, Guiderdoni E, Gutiérrez RA (2016). Members of BTB Gene Family of Scaffold Proteins Suppress Nitrate Uptake and Nitrogen Use Efficiency. Plant Physiol 171, 1523-32. PubMed

61.- Perez-Delgado CM, Moyano TC, Garcia-Calderon M, Canales J, Gutiérrez RA, Marquez AJ, Betti M (2016). Use of transcriptomics and co-expression networks to analyze the interconnections between nitrogen assimilation and photorespiratory metabolism. J Exp Bot 67, 3095-108. PubMed

62.- Diaz FP, Frugone M, Gutiérrez RA, Latorre C (2016). Nitrogen cycling in an extreme hyperarid environment inferred from delta(15)N analyses of plants, soils and herbivore diet. Sci Rep 6, 22226. PubMed

63.- Vega A, Canessa P, Hoppe G, Retamal I, Moyano TC, Canales J, Gutiérrez RA, Rubilar J (2015). Transcriptome analysis reveals regulatory networks underlying differential susceptibility to Botrytis cinerea in response to nitrogen availability in Solanum lycopersicum. Front Plant Sci 6, 911. PubMed

64.- Riveras E, Alvarez JM, Vidal EA, Oses C, Vega A, Gutiérrez RA (2015). The Calcium Ion Is a Second Messenger in the Nitrate Signaling Pathway of Arabidopsis. Plant Physiol 169, 1397-404. PubMed

65.- Vidal EA, Alvarez JM, Moyano TC, Gutiérrez RA (2015). Transcriptional networks in the nitrate response of Arabidopsis thaliana. Curr Opin Plant Biol 27, 125-32. PubMed

66.- Acuna M, Martinez P, Moraga C, He X, Moraga M, Hunter B, Nuernberg P, Gutiérrez RA, Gonzalez M, Schuchman EH, Luis Santos J, Miquel JF, Mabe P, Zanlungo S (2015). Epidemiological, clinical and biochemical characterization of the p.(Ala359Asp) SMPD1 variant causing Niemann-Pick disease type B. Eur J Hum Genet . PubMed

67.- Moyano TC, Vidal EA, Contreras-Lopez O, Gutiérrez RA (2015). Constructing simple biological networks for understanding complex high-throughput data in plants. Methods Mol Biol 1284, 503-26. PubMed

68.- Vidal EA, Moyano TC, Canales J, Gutiérrez RA (2014). Nitrogen control of developmental phase transitions in Arabidopsis thaliana. J Exp Bot . PubMed

69.- Alvarez JM, Riveras E, Vidal EA, Gras DE, Contreras-Lopez O, Tamayo KP, Aceituno F, Gomez I, Ruffel S, Lejay L, Jordana X, Gutiérrez RA (2014). Systems approach identifies TGA1 and TGA4 transcription factors as important regulatory components of the nitrate response of Arabidopsis thaliana roots. Plant J . PubMed

70.- Vidal EA, Alvarez JM, Gutiérrez RA (2014). Nitrate regulation of AFB3 and NAC4 gene expression in Arabidopsis roots depends on NRT1.1 nitrate transport function. Plant Signal Behav 9. PubMed

71.- Canales J, Moyano TC, Villarroel E, Gutiérrez RA (2014). Systems analysis of transcriptome data provides new hypotheses about Arabidopsis root response to nitrate treatments. Front Plant Sci 5, 22. PubMed Download

72.- Federici F, Rudge TJ, Pollak B, Haseloff J, Gutiérrez RA (2013). Synthetic Biology: opportunities for Chilean bioindustry and education. Biol Res 46, 383-93. PubMed

73.- Vidal EA, Moyano TC, Riveras E, Contreras-Lopez O, Gutiérrez RA (2013). Systems approaches map regulatory networks downstream of the auxin receptor AFB3 in the nitrate response of Arabidopsis thaliana roots. Proc Natl Acad Sci U S A 110, 12840-5. PubMed Download

74.- Vidal EA, Moyano TC, Krouk G, Katari MS, Tanurdzic M, McCombie WR, Coruzzi GM, Gutiérrez RA (2013). Integrated RNA-seq and sRNA-seq analysis identifies novel nitrate-responsive genes in Arabidopsis thaliana roots. BMC Genomics 14, 701. PubMed

75.- Zuniga A, Poupin MJ, Donoso R, Ledger T, Guiliani N, Gutiérrez RA, Gonzalez B (2013). Quorum sensing and indole-3-acetic acid degradation play a role in colonization and plant growth promotion of Arabidopsis thaliana by Burkholderia phytofirmans PsJN. Mol Plant Microbe Interact 26, 546-53. PubMed Download

76.- Puelma T, Gutiérrez RA, Soto A (2012). Discriminative local subspaces in gene expression data for effective gene function prediction. Bioinformatics 28, 2256-64. PubMed Download

77.- Gutiérrez RA (2012). Systems biology for enhanced plant nitrogen nutrition. Science 336, 1673-5. PubMed [Reprint]

78.- Alvarez JM, Vidal EA, Gutiérrez RA (2012). Integration of local and systemic signaling pathways for plant N responses. Curr Opin Plant Biol 15, 185-91. PubMed Download

79.- Fuentes D, Meneses M, Nunes-Nesi A, Araujo WL, Tapia R, Gomez I, Holuigue L, Gutiérrez RA, Fernie AR, Jordana X (2011). A deficiency in the flavoprotein of Arabidopsis mitochondrial complex II results in elevated photosynthesis and better growth in nitrogen-limiting conditions. Plant Physiol 157, 1114-27. PubMed Download

80.- Vega A, Gutiérrez RA, Pena-Neira A, Cramer GR, Arce-Johnson P (2011). Compatible GLRaV-3 viral infections affect berry ripening decreasing sugar accumulation and anthocyanin biosynthesis in Vitis vinifera. Plant Mol Biol 77, 261-74. PubMed Download

81.- Krouk G, Ruffel S, Gutiérrez RA, Gojon A, Crawford NM, Coruzzi GM, Lacombe B (2011). A framework integrating plant growth with hormones and nutrients. Trends Plant Sci 16, 178-82. PubMed Download

82.- Kraiser T, Gras DE, Gutierrez AG, Gonzalez B, Gutiérrez RA (2011). A holistic view of nitrogen acquisition in plants. J Exp Bot 62, 1455-66. PubMed Download

83.- International Arabidopsis Informatics Consortium (2010). An international bioinformatics infrastructure to underpin the Arabidopsis community. Plant Cell 22, 2530-6. PubMed Download

84.- Vidal EA, Araus V, Lu C, Parry G, Green PJ, Coruzzi GM, Gutiérrez RA (2010). Nitrate-responsive miR393/AFB3 regulatory module controls root system architecture in Arabidopsis thaliana. Proc Natl Acad Sci U S A . PubMed Download

85.- McClung CR, Gutiérrez RA (2010). Network news: prime time for systems biology of the plant circadian clock. Curr Opin Genet Dev . PubMed Download

86.- Vidal EA, Tamayo KP, Gutiérrez RA (2010). Gene networks for nitrogen sensing, signaling, and response in Arabidopsis thaliana. Wiley Interdiscip Rev Syst Biol Med 2, 683-93. PubMed Download

87.- Katari MS, Nowicki SD, Aceituno FF, Nero D, Kelfer J, Thompson LP, Cabello JM, Davidson RS, Goldberg AP, Shasha DE, Coruzzi GM, Gutiérrez RA (2010). VirtualPlant: a software platform to support systems biology research. Plant Physiol 152, 500-15. PubMed Download

88.- Das M, Reichman JR, Haberer G, Welzl G, Aceituno FF, Mader MT, Watrud LS, Pfleeger TG, Gutiérrez RA, Schaffner AR, Olszyk DM (2010). A composite transcriptional signature differentiates responses towards closely related herbicides in Arabidopsis thaliana and Brassica napus. Plant Mol Biol 72, 545-56. PubMed Download

89.- Krouk G, Tranchina D, Lejay L, Cruikshank AA, Shasha D, Coruzzi GM, Gutiérrez RA (2009). A systems approach uncovers restrictions for signal interactions regulating genome-wide responses to nutritional cues in Arabidopsis. PLoS Comput Biol 5, e1000326. PubMed Download

90.- Reforgiato D, Gutiérrez RA, Shasha D (2008). GraphClust: A Method for Clustering Database of Graphs. J Information & Knowledge Management. 7, 231-241.

91.- Bender J, Benfey P, Bergmann D, Borevitz J, Coruzzi G, Dangl J, Dean C, Ecker J, Estelle M, Glazebrook J, Grant S, Guerinot ML, Gutierrez R, Long J, Nordborg M, Poethig S, Raikhel N, Schmitt J, Schnittger A, Vidal M (2008). 2020 vision for biology: the role of plants in addressing grand challenges in biology. Mol Plant 1, 561-3. PubMed

92.- Aceituno FF, Moseyko N, Rhee SY, Gutiérrez RA (2008). The rules of gene expression in plants: Organ identity and gene body methylation are key factors for regulation of gene expression in Arabidopsis thaliana. BMC Genomics 9, 438. PubMed Download [Supplemental Material]

93.- Holuigue L, Vielle-Calzada JP, Gutiérrez RA (2008). Crops in all shapes and sizes. Genome Biol 9, 319. PubMed

94.- Vidal EA, Gutiérrez RA (2008). A systems view of nitrogen nutrient and metabolite responses in Arabidopsis. Curr Opin Plant Biol 11, 521-9. PubMed Download

95.- Thum KE, Shin MJ, Gutiérrez RA, Mukherjee I, Katari MS, Nero D, Shasha D, Coruzzi GM (2008). An integrated genetic, genomic and systems approach defines gene networks regulated by the interaction of light and carbon signaling pathways in Arabidopsis. BMC Syst Biol 2, 31. PubMed Download

96.- Gutiérrez RA, Stokes TL, Thum K, Xu X, Obertello M, Katari MS, Tanurdzic M, Dean A, Nero DC, McClung CR, Coruzzi GM (2008). Systems approach identifies an organic nitrogen-responsive gene network that is regulated by the master clock control gene CCA1. Proc Natl Acad Sci U S A 105, 4939-44. PubMed Download

97.- Gifford ML, Dean A, Gutiérrez RA, Coruzzi GM, Birnbaum KD (2008). Cell-specific nitrogen responses mediate developmental plasticity. Proc Natl Acad Sci U S A 105, 803-8. PubMed Download

98.- Gutiérrez RA, Gifford ML, Poultney C, Wang R, Shasha DE, Coruzzi GM, Crawford NM (2007). Insights into the genomic nitrate response using genetics and the Sungear Software System. J Exp Bot 58, 2359-67. PubMed Download

99.- Gutiérrez RA, Lejay LV, Dean A, Chiaromonte F, Shasha DE, Coruzzi GM (2007). Qualitative network models and genome-wide expression data define carbon/nitrogen-responsive molecular machines in Arabidopsis. Genome Biol 8, R7. PubMed Download

100.- Poultney CS, Gutiérrez RA, Katari MS, Gifford ML, Paley WB, Coruzzi GM, Shasha DE (2007). Sungear: interactive visualization and functional analysis of genomic datasets. Bioinformatics 23, 259-61. PubMed Download

101.- Li C, Potuschak T, Colon-Carmona A, Gutiérrez RA, Doerner P (2005). Arabidopsis TCP20 links regulation of growth and cell division control pathways. Proc Natl Acad Sci U S A 102, 12978-83. PubMed Download

102.- Lidder P*, Gutiérrez RA*, Salome PA, McClung CR, Green PJ (2005). Circadian control of messenger RNA stability. Association with a sequence-specific messenger RNA decay pathway. *Both authors contributed equally. Plant Physiol 138, 2374-85. PubMed Download

103.- Gutiérrez RA, Shasha DE, Coruzzi GM (2005). Systems biology for the virtual plant. Plant Physiol 138, 550-4. PubMed Download

104.- Wang R, Tischner R, Gutiérrez RA, Hoffman M, Xing X, Chen M, Coruzzi G, Crawford NM (2004). Genomic analysis of the nitrate response using a nitrate reductase-null mutant of Arabidopsis. Plant Physiol 136, 2512-22. PubMed Download

105.- Gutiérrez RA*, Larson MD, Wilkerson C (2004). The plant-specific database. Classification of Arabidopsis proteins based on their phylogenetic profile. *Corresponding author. Plant Physiol 135, 1888-92. PubMed Download

106.- Gutiérrez RA*, Green PJ, Keegstra K, Ohlrogge JB (2004). Phylogenetic profiling of the Arabidopsis thaliana proteome: what proteins distinguish plants from other organisms? *Corresponding author. Genome Biol 5, R53. PubMed Download

107.- Gutiérrez RA, Ewing RM, Cherry JM, Green PJ (2002). Identification of unstable transcripts in Arabidopsis by cDNA microarray analysis: rapid decay is associated with a group of touch- and specific clock-controlled genes. Proc Natl Acad Sci U S A 99, 11513-8. PubMed Download

108.- Ghosh D, Sawicki M, Lala P, Erman M, Pangborn W, Eyzaguirre J, Gutierrez R, Jornvall H, Thiel DJ (2001). Multiple conformations of catalytic serine and histidine in acetylxylan esterase at 0.90 A. J Biol Chem 276, 11159-66. PubMed Download

109.- Gutiérrez RA, MacIntosh GC, Green PJ (1999). Current perspectives on mRNA stability in plants: multiple levels and mechanisms of control. Trends Plant Sci 4, 429-438. PubMed Download

110.- Ghosh D, Erman M, Sawicki M, Lala P, Weeks DR, Li N, Pangborn W, Thiel DJ, Jornvall H, Gutierrez R, Eyzaguirre J (1999). Determination of a protein structure by iodination: the structure of iodinated acetylxylan esterase. Acta Crystallogr D Biol Crystallogr 55 ( Pt 4), 779-84. PubMed Download

111.- Gutierrez R, Cederlund E, Hjelmqvist L, Peirano A, Herrera F, Ghosh D, Duax W, Jornvall H, Eyzaguirre J (1998). Acetyl xylan esterase II from Penicillium purpurogenum is similar to an esterase from Trichoderma reesei but lacks a cellulose binding domain. FEBS Lett 423, 35-8. PubMed Download

112.- Egana L, Gutierrez R, Caputo V, Peirano A, Steiner J, Eyzaguirre J (1996). Purification and characterization of two acetyl xylan esterases from Penicillium purpurogenum. Biotechnol Appl Biochem 24 ( Pt 1), 33-9. PubMed

113.- Pangborn W, Erman M, Li N, Burkhart BM, Pletnev VZ, Duax WL, Gutierrez R, Peirano A, Eyzaguirre J, Thiel DJ, Ghosh D (1996). Characterization of crystals of Penicillium purpurogenum acetyl xylan esterase from high-resolution x-ray diffraction. Proteins 24, 523-4. PubMed Download

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