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[1]
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Aureliano C Cunha, Renato A Corrêa Dos Santos, Diego M Riaño-Pachon, Fábio M
Squina, Juliana V C Oliveira, Gustavo H Goldman, Aline T Souza, Lorena S
Gomes, Fernanda Godoy-Santos, Janaina A Teixeira, Fábio Faria-Oliveira,
Izinara C Rosse, Ieso M Castro, Cândida Lucas, and Rogelio L Brandão.
Draft genome sequence of wickerhamomyces anomalus lbcm1105, isolated
from cachaça fermentation.
Genetics and molecular biology, 43:e20190122, 2020.
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DOI ]
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[2]
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Fernando Manuel Matias Hurtado, Maísa de Siqueira Pinto, Perla Novais de
Oliveira, Diego Mauricio Riaño-Pachón, Laura Beatriz Inocente, and Helaine
Carrer.
Analysis of nac domain transcription factor genes of tectona grandis
l.f. involved in secondary cell wall deposition.
Genes, 11, December 2019.
[ bib |
DOI ]
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[3]
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Bruna S Fernandes, Oscar Dias, Gisela Costa, Antonio A Kaupert Neto, Tiago F C
Resende, Juliana V C Oliveira, Diego M Riaño-Pachón, Marcelo Zaiat, José
G C Pradella, and Isabel Rocha.
Genome-wide sequencing and metabolic annotation of pythium irregulare
cbs 494.86: understanding eicosapentaenoic acid production.
BMC biotechnology, 19:41, June 2019.
[ bib |
DOI ]
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[4]
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Juan Camilo Castro, Ivan Valdés, Laura Natalia Gonzalez-García, Giovanna
Danies, Silvia Cañas, Flavia Vischi Winck, Carlos Eduardo Ñústez, Silvia
Restrepo, and Diego Mauricio Riaño-Pachón.
Gene regulatory networks on transfer entropy (grnte): a novel
approach to reconstruct gene regulatory interactions applied to a case study
for the plant pathogen phytophthora infestans.
Theoretical biology & medical modelling, 16:7, April 2019.
[ bib |
DOI ]
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[5]
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Bruna Constante Fonseca, Diego Mauricio Riaño-Pachón, María-Eugenia
Guazzaroni, and Valeria Reginatto.
Genome sequence of the h2-producing clostridium beijerinckii strain
br21 isolated from a sugarcane vinasse treatment plant.
Genetics and molecular biology, 42:139--144, 2019.
[ bib |
DOI ]
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[6]
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Dyfed Lloyd Evans, Thandekile Thandiwe Hlongwane, Shailesh V Joshi, and Diego M
Riaño Pachón.
The sugarcane mitochondrial genome: assembly, phylogenetics and
transcriptomics.
PeerJ, 7:e7558, 2019.
[ bib |
DOI ]
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[7]
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Paula Fagundes de Gouvêa, Aline Vianna Bernardi, Luis Eduardo Gerolamo,
Emerson de Souza Santos, Diego Mauricio Riaño-Pachón, Sergio Akira Uyemura,
and Taisa Magnani Dinamarco.
Transcriptome and secretome analysis of aspergillus fumigatus in the
presence of sugarcane bagasse.
BMC genomics, 19:232, April 2018.
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DOI ]
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[8]
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Gustavo Pagotto Borin, Marcelo Falsarella Carazzolle, Renato Augusto Corrêa
Dos Santos, Diego Mauricio Riaño-Pachón, and Juliana Velasco de Castro
Oliveira.
Gene co-expression network reveals potential new genes related to
sugarcane bagasse degradation in trichoderma reesei rut-30.
Frontiers in bioengineering and biotechnology, 6:151, 2018.
[ bib |
DOI ]
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[9]
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Adriana Oliveira Manfiolli, Patrícia Alves de Castro, Thaila Fernanda
Dos Reis, Stephen Dolan, Sean Doyle, Gary Jones, Diego M Riaño Pachón,
Mevlüt Ulaa, Luke M Noble, Derek J Mattern, Axel A Brakhage, Vito
Valiante, Rafael Silva-Rocha, Ozgur Bayram, and Gustavo H Goldman.
Aspergillus fumigatus protein phosphatase ppza is involved in iron
assimilation, secondary metabolite production, and virulence.
Cellular microbiology, 19, December 2017.
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DOI ]
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[10]
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Fabiano Jares Contesini, Marcelo Vizoná Liberato, Marcelo Ventura Rubio,
Felipe Calzado, Mariane Paludetti Zubieta, Diego Mauricio Riaño-Pachón,
Fabio Marcio Squina, Fabricio Bracht, Munir S Skaf, and André Ricardo
Damasio.
Structural and functional characterization of a highly secreted
α-l-arabinofuranosidase (gh62) from aspergillus nidulans grown on sugarcane
bagasse.
Biochimica et biophysica acta, 1865:1758--1769, December 2017.
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DOI ]
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[11]
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Paula Macedo Nobile, Alexandra Bottcher, Juliana L S Mayer, Michael S Brito,
Ivan A Dos Anjos, Marcos Guimarães de Andrade Landell, Renato Vicentini,
Silvana Creste, Diego Mauricio Riaño-Pachón, and Paulo Mazzafera.
Identification, classification and transcriptional profiles of
dirigent domain-containing proteins in sugarcane.
Molecular genetics and genomics : MGG, July 2017.
[ bib |
DOI ]
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[12]
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F Mandelli, M B Couger, D A A Paixão, C B Machado, C M Carnielli, J A
Aricetti, I Polikarpov, R Prade, C Caldana, A F Paes Leme, A Z Mercadante,
D M Riaño-Pachón, and Fabio Marcio Squina.
Thermal adaptation strategies of the extremophile bacterium thermus
filiformis based on multi-omics analysis.
Extremophiles : life under extreme conditions, 21:775--788,
July 2017.
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[13]
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Gustavo Pagotto Borin, Camila Cristina Sanchez, Eliane Silva de Santana,
Guilherme Keppe Zanini, Renato Augusto Corrêa Dos Santos, Angélica
de Oliveira Pontes, Aline Tieppo de Souza, Roberta Maria Menegaldo
Tavares Soares Dal'Mas, Diego Mauricio Riaño-Pachón, Gustavo Henrique
Goldman, and Juliana Velasco de Castro Oliveira.
Comparative transcriptome analysis reveals different strategies for
degradation of steam-exploded sugarcane bagasse by aspergillus niger and
trichoderma reesei.
BMC genomics, 18:501, June 2017.
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DOI ]
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[14]
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Lilian Pereira Silva, Patrícia Alves de Castro, Thaila Fernanda Dos Reis,
Mario Henrique Paziani, Márcia Regina Von Zeska Kress, Diego M
Riaño-Pachón, Daisuke Hagiwara, Laure N A Ries, Neil Andrew Brown, and
Gustavo H Goldman.
Genome-wide transcriptome analysis of aspergillus fumigatus exposed
to osmotic stress reveals regulators of osmotic and cell wall stresses that
are saka(hog1) and mpkc dependent.
Cellular microbiology, 19, April 2017.
[ bib |
DOI ]
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[15]
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Renato Augusto Corrêa Dos Santos, Gustavo Henrique Goldman, and Diego Mauricio
Riaño-Pachón.
ploidyngs: Visually exploring ploidy with next generation sequencing
data.
Bioinformatics (Oxford, England), April 2017.
[ bib |
DOI ]
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[16]
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Natalia Coutouné, Aline Tieppo Nogueira Mulato, Diego Mauricio Riaño-Pachón,
and Juliana Velasco de Castro Oliveira.
Draft genome sequence of saccharomyces cerevisiae barra grande
(bg-1), a brazilian industrial bioethanol-producing strain.
Genome announcements, 5, March 2017.
[ bib |
DOI ]
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[17]
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Thaila Fernanda Dos Reis, Benjamin M Nitsche, Pollyne Borborema Almeida
de Lima, Leandro José de Assis, Laura Mellado, Steven D Harris, Vera Meyer,
Renato A Corrêa Dos Santos, Diego M Riaño-Pachón, Laure Nicolas Annick
Ries, and Gustavo H Goldman.
The low affinity glucose transporter hxtb is also involved in glucose
signalling and metabolism in aspergillus nidulans.
Scientific reports, 7:45073, March 2017.
[ bib |
DOI ]
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[18]
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Ronald P de Vries, Robert Riley, Ad Wiebenga, Guillermo Aguilar-Osorio, Sotiris
Amillis, Cristiane Akemi Uchima, Gregor Anderluh, Mojtaba Asadollahi, Marion
Askin, Kerrie Barry, Evy Battaglia, Özgür Bayram, Tiziano Benocci,
Susanna A Braus-Stromeyer, Camila Caldana, David Cánovas, Gustavo C
Cerqueira, Fusheng Chen, Wanping Chen, Cindy Choi, Alicia Clum, Renato
Augusto Corrêa Dos Santos, André Ricardo de Lima Damásio, George
Diallinas, Tamás Emri, Erzsébet Fekete, Michel Flipphi, Susanne Freyberg,
Antonia Gallo, Christos Gournas, Rob Habgood, Matthieu Hainaut, María Laura
Harispe, Bernard Henrissat, Kristiina S Hildén, Ryan Hope, Abeer Hossain,
Eugenia Karabika, Levente Karaffa, Zsolt Karányi, Nada Kraševec, Alan Kuo,
Harald Kusch, Kurt LaButti, Ellen L Lagendijk, Alla Lapidus, Anthony
Levasseur, Erika Lindquist, Anna Lipzen, Antonio F Logrieco, Andrew MacCabe,
Miia R Mäkelä, Iran Malavazi, Petter Melin, Vera Meyer, Natalia Mielnichuk,
Márton Miskei, Ákos P Molnár, Giuseppina Mulé, Chew Yee Ngan, Margarita
Orejas, Erzsébet Orosz, Jean Paul Ouedraogo, Karin M Overkamp, Hee-Soo Park,
Giancarlo Perrone, Francois Piumi, Peter J Punt, Arthur F J Ram, Ana Ramón,
Stefan Rauscher, Eric Record, Diego Mauricio Riaño-Pachón, Vincent Robert,
Julian Röhrig, Roberto Ruller, Asaf Salamov, Nadhira S Salih, Rob A Samson,
Erzsébet Sándor, Manuel Sanguinetti, Tabea Schütze, Kristina Sepčić,
Ekaterina Shelest, Gavin Sherlock, Vicky Sophianopoulou, Fabio M Squina, Hui
Sun, Antonia Susca, Richard B Todd, Adrian Tsang, Shiela E Unkles, Nathalie
van de Wiele, Diana van Rossen-Uffink, Juliana Velasco de Castro Oliveira,
Tammi C Vesth, Jaap Visser, Jae-Hyuk Yu, Miaomiao Zhou, Mikael R Andersen,
David B Archer, Scott E Baker, Isabelle Benoit, Axel A Brakhage, Gerhard H
Braus, Reinhard Fischer, Jens C Frisvad, Gustavo H Goldman, Jos Houbraken,
Berl Oakley, István Pócsi, Claudio Scazzocchio, Bernhard Seiboth,
Patricia A vanKuyk, Jennifer Wortman, Paul S Dyer, and Igor V Grigoriev.
Comparative genomics reveals high biological diversity and specific
adaptations in the industrially and medically important fungal genus
aspergillus.
Genome biology, 18:28, February 2017.
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[19]
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Bruno L Mello, Anna M Alessi, Diego M Riaño-Pachón, Eduardo R deAzevedo,
Francisco E G Guimarães, Melissa C Espirito Santo, Simon McQueen-Mason,
Neil C Bruce, and Igor Polikarpov.
Targeted metatranscriptomics of compost-derived consortia reveals a
gh11 exerting an unusual exo-1,4-β-xylanase activity.
Biotechnology for biofuels, 10:254, 2017.
[ bib |
DOI ]
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[20]
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DM Riaño Pachón and L Mattiello.
Draft genome sequencing of the sugarcane hybrid sp80-3280 [version 2;
referees: 2 approved].
F1000Research, 6(861), 2017.
[ bib |
DOI ]
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[21]
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Renato Augusto Correa Santos, Gustavo H. Goldman, and Diego Mauricio Riaño Pachón.
ploidyngs: Visually exploring ploidy with next generation sequencing
data.
BioRxiv, November 2016.
[ bib |
DOI |
http ]
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[22]
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Flavia V Winck, Diego M Riaño-Pachón, and Telma T Franco.
Editorial: Advances in microalgae biology and sustainable
applications.
Frontiers in plant science, 7:1385, 2016.
[ bib |
DOI ]
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[23]
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Flavia V. Winck, David O Páez Melo, Diego M. Riaño-Pachón,
Marina C M. Martins, Camila Caldana, and Andrés F González
Barrios.
Analysis of sensitive co2 pathways and genes related to carbon uptake
and accumulation in chlamydomonas reinhardtii through genomic scale modeling
and experimental validation.
Front Plant Sci, 7:43, 2016.
[ bib |
DOI |
http ]
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[24]
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Patrícia Alves de Castro, Thaila Fernanda Dos Reis, Stephen K.
Dolan, Adriana Oliveira Manfiolli, Neil Andrew Brown, Gary W. Jones, Sean
Doyle, Diego M. Riaño-Pachón, Fábio Márcio Squina,
Camila Caldana, Ashutosh Singh, Maurizio Del Poeta, Daisuke Hagiwara,
Rafael Silva-Rocha, and Gustavo H. Goldman.
The aspergillus fumigatus scha(sch9) kinase modulates saka(hog1) map
kinase activity and it is essential for virulence.
Mol Microbiol, Aug 2016.
[ bib |
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[25]
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Neil Andrew Brown, Laure N A. Ries, Thaila F. Reis, Ranjith Rajendran,
Renato Augusto Corrêa Dos Santos, Gordon Ramage, Diego Mauricio
Riaño-Pachón, and Gustavo H. Goldman.
Rnaseq reveals hydrophobins that are involved in the adaptation of
aspergillus nidulans to lignocellulose.
Biotechnol Biofuels, 9:145, 2016.
[ bib |
DOI |
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[26]
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Flavia V. Winck, Ana Carolina Prado Ribeiro, Romênia Ramos Domingues,
Liu Yi Ling, Diego Mauricio Riaño-Pachón, César Rivera,
Thaís Bianca Brandão, Adriele Ferreira Gouvea, Alan Roger
Santos-Silva, Ricardo D. Coletta, and Adriana F. Paes Leme.
Insights into immune responses in oral cancer through proteomic
analysis of saliva and salivary extracellular vesicles.
Sci Rep, 5:16305, 2015.
[ bib |
DOI |
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[27]
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Juan Pablo Rosas-Morales, Ximena Perez-Mancilla, Liliana López-Kleine,
Dolly Montoya Castaño, and Diego Mauricio Riaño-Pachón.
Draft genome sequences of clostridium strains native to colombia with
the potential to produce solvents.
Genome Announc, 3(3), 2015.
[ bib |
DOI |
http ]
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[28]
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Lucia Mattiello, Diego Mauricio Riaño-Pachón, Marina Camara Mattos
Martins, Larissa Prado da Cruz, Denis Bassi, Paulo Eduardo Ribeiro
Marchiori, Rafael Vasconcelos Ribeiro, Mônica T Veneziano Labate,
Carlos Alberto Labate, and Marcelo Menossi.
Physiological and transcriptional analyses of developmental stages
along sugarcane leaf.
BMC Plant Biol, 15:300, 2015.
[ bib |
DOI |
http ]
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[29]
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Marçal Mariné, Neil Andrew Brown, Diego Mauricio
Riaño-Pachón, and Gustavo Henrique Goldman.
On and under the skin: Emerging basidiomycetous yeast infections
caused by trichosporon species.
PLoS Pathog, 11(7):e1004982, Jul 2015.
[ bib |
DOI |
http ]
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[30]
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Fernanda Mandelli, Brenda Oliveira Ramires, Matthew Brian Couger, Douglas
A A. Paixão, Cesar M. Camilo, Igor Polikarpov, Rolf Prade, Diego M.
Riaño-Pachón, and Fabio M. Squina.
Draft genome sequence of the thermophile thermus filiformis atcc
43280, producer of carotenoid-(di)glucoside-branched fatty acid (di)esters
and source of hyperthermostable enzymes of biotechnological interest.
Genome Announc, 3(3), 2015.
[ bib |
DOI |
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[31]
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Renato Augusto Corrêa Dos Santos, Andresa Aparecida Berretta, Hernane
da Silva Barud, Sidney José Lima Ribeiro, Laura Natalia
González-García, Tiago Domingues Zucchi, Gustavo H. Goldman, and
Diego M. Riaño-Pachón.
Draft genome sequence of komagataeibacter intermedius strain af2, a
producer of cellulose, isolated from kombucha tea.
Genome Announc, 3(6), 2015.
[ bib |
DOI |
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[32]
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Mohammad Amin Omidbakhshfard, Flavia Vischi Winck, Samuel Arvidsson, Diego M.
Riaño-Pachón, and Bernd Mueller-Roeber.
A step-by-step protocol for formaldehyde-assisted isolation of
regulatory elements from arabidopsis thaliana.
J Integr Plant Biol, 56(6):527--538, Jun 2014.
[ bib |
DOI |
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[33]
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Juliana Velasco de Castro Oliveira, Thuanny A. Borges, Renato Augusto
Corrêa dos Santos, Larissa F D. Freitas, Carlos Augusto Rosa,
Gustavo Henrique Goldman, and Diego Mauricio Riaño-Pachón.
Pseudozyma brasiliensis sp. nov., a xylanolytic, ustilaginomycetous
yeast species isolated from an insect pest of sugarcane roots.
Int J Syst Evol Microbiol, 64(Pt 6):2159--2168, Jun 2014.
[ bib |
DOI |
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[34]
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Renato Augusto Corrêa Dos Santos, Andresa A. Berretta, Hernane da Silva
Barud, Sidney José Lima Ribeiro, Laura Natalia
González-García, Tiago Domingues Zucchi, Gustavo H. Goldman, and
Diego M. Riaño-Pachón.
Draft genome sequence of komagataeibacter rhaeticus strain af1, a
high producer of cellulose, isolated from kombucha tea.
Genome Announc, 2(4), 2014.
[ bib |
DOI |
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[35]
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Marco A. Cristancho, David Octavio Botero-Rozo, William Giraldo, Javier Tabima,
Diego Mauricio Riaño-Pachón, Carolina Escobar, Yomara Rozo,
Luis F. Rivera, Andrés Durán, Silvia Restrepo, Tamar Eilam,
Yehoshua Anikster, and Alvaro L. Gaitán.
Annotation of a hybrid partial genome of the coffee rust (hemileia
vastatrix) contributes to the gene repertoire catalog of the pucciniales.
Front Plant Sci, 5:594, 2014.
[ bib |
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[36]
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Francisco Javier Buitrago-Flórez, Silvia Restrepo, and Diego Mauricio
Riaño-Pachón.
Identification of transcription factor genes and their correlation
with the high diversity of stramenopiles.
PLoS One, 9(11):e111841, 2014.
[ bib |
DOI |
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[37]
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Flavia Vischi Winck, Flavia Vischi Winck, Samuel Arvidsson, Diego Mauricio
Riaño-Pachón, Sabrina Hempel, Aneta Koseska, Zoran Nikoloski,
David Alejandro Urbina Gomez, Jens Rupprecht, and Bernd Mueller-Roeber.
Genome-wide identification of regulatory elements and reconstruction
of gene regulatory networks of the green alga chlamydomonas reinhardtii under
carbon deprivation.
PLoS One, 8(11):e79909, 2013.
[ bib |
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[38]
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Betsy A. Read, Jessica Kegel, Mary J. Klute, Alan Kuo, Stephane C. Lefebvre,
Florian Maumus, Christoph Mayer, John Miller, Adam Monier, Asaf Salamov,
Jeremy Young, Maria Aguilar, Jean-Michel Claverie, Stephan Frickenhaus,
Karina Gonzalez, Emily K. Herman, Yao-Cheng Lin, Johnathan Napier, Hiroyuki
Ogata, Analissa F. Sarno, Jeremy Shmutz, Declan Schroeder, Colomban de
Vargas, Frederic Verret, Peter von Dassow, Klaus Valentin, Yves Van de
Peer, Glen Wheeler, Emiliania huxleyi Annotation Consortium , Joel B.
Dacks, Charles F. Delwiche, Sonya T. Dyhrman, Gernot Glöckner, Uwe
John, Thomas Richards, Alexandra Z. Worden, Xiaoyu Zhang, and Igor V.
Grigoriev.
Pan genome of the phytoplankton emiliania underpins its global
distribution.
Nature, 499(7457):209--213, Jul 2013.
[ bib |
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[39]
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Juliana Velasco de Castro Oliveira, Renato Augusto Corrêa Dos Santos,
Thuanny A. Borges, Diego Mauricio Riaño-Pachón, and
Gustavo Henrique Goldman.
Draft genome sequence of pseudozyma brasiliensis sp. nov. strain
ghg001, a high producer of endo-1,4-xylanase isolated from an insect pest of
sugarcane.
Genome Announc, 1(6), 2013.
[ bib |
DOI |
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[40]
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Liliana López-Kleine, Andrés Pinzón, Diego Chaves, Silvia
Restrepo, and Diego M. Riaño-Pachón.
Chromosome 10 in the tomato plant carries clusters of genes
responsible for field resistance/defence to phytophthora infestans.
Genomics, 101(4):249--255, Apr 2013.
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DOI |
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[41]
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Flavia V. Winck, Diego M. Riaño-Pachón, Frederik Sommer, Jens
Rupprecht, and Bernd Mueller-Roeber.
The nuclear proteome of the green alga chlamydomonas reinhardtii.
Proteomics, 12(1):95--100, Jan 2012.
[ bib |
DOI |
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[42]
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Judith Lucia Gomez-Porras, Diego Mauricio Riaño-Pachón,
Begoña Benito, Rosario Haro, Kamil Sklodowski, Alonso
Rodríguez-Navarro, and Ingo Dreyer.
Phylogenetic analysis of k(+) transporters in bryophytes, lycophytes,
and flowering plants indicates a specialization of vascular plants.
Front Plant Sci, 3:167, 2012.
[ bib |
DOI |
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[43]
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Ingo Dreyer, Judith Lucia Gomez-Porras, Diego Mauricio
Riaño-Pachón, Rainer Hedrich, and Dietmar Geiger.
Molecular evolution of slow and quick anion channels (slacs and
quacs/almts).
Front Plant Sci, 3:263, 2012.
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[44]
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Jo Ann Banks, Tomoaki Nishiyama, Mitsuyasu Hasebe, John L. Bowman, Michael
Gribskov, Claude dePamphilis, Victor A. Albert, Naoki Aono, Tsuyoshi Aoyama,
Barbara A. Ambrose, Neil W. Ashton, Michael J. Axtell, Elizabeth Barker,
Michael S. Barker, Jeffrey L. Bennetzen, Nicholas D. Bonawitz, Clint Chapple,
Chaoyang Cheng, Luiz Gustavo Guedes Correa, Michael Dacre, Jeremy DeBarry,
Ingo Dreyer, Marek Elias, Eric M. Engstrom, Mark Estelle, Liang Feng,
Cédric Finet, Sandra K. Floyd, Wolf B. Frommer, Tomomichi Fujita, Lydia
Gramzow, Michael Gutensohn, Jesper Harholt, Mitsuru Hattori, Alexander Heyl,
Tadayoshi Hirai, Yuji Hiwatashi, Masaki Ishikawa, Mineko Iwata, Kenneth G.
Karol, Barbara Koehler, Uener Kolukisaoglu, Minoru Kubo, Tetsuya Kurata,
Sylvie Lalonde, Kejie Li, Ying Li, Amy Litt, Eric Lyons, Gerard Manning,
Takeshi Maruyama, Todd P. Michael, Koji Mikami, Saori Miyazaki, Shin-ichi
Morinaga, Takashi Murata, Bernd Mueller-Roeber, David R. Nelson, Mari Obara,
Yasuko Oguri, Richard G. Olmstead, Naoko Onodera, Bent Larsen Petersen,
Birgit Pils, Michael Prigge, Stefan A. Rensing, Diego Mauricio
Riaño-Pachón, Alison W. Roberts, Yoshikatsu Sato, Henrik Vibe
Scheller, Burkhard Schulz, Christian Schulz, Eugene V. Shakirov, Nakako
Shibagaki, Naoki Shinohara, Dorothy E. Shippen, Iben Sørensen, Ryo
Sotooka, Nagisa Sugimoto, Mamoru Sugita, Naomi Sumikawa, Milos Tanurdzic,
Günter Theissen, Peter Ulvskov, Sachiko Wakazuki, Jing-Ke Weng, William
W G T. Willats, Daniel Wipf, Paul G. Wolf, Lixing Yang, Andreas D. Zimmer,
Qihui Zhu, Therese Mitros, Uffe Hellsten, Dominique Loqué, Robert
Otillar, Asaf Salamov, Jeremy Schmutz, Harris Shapiro, Erika Lindquist, Susan
Lucas, Daniel Rokhsar, and Igor V. Grigoriev.
The selaginella genome identifies genetic changes associated with the
evolution of vascular plants.
Science, 332(6032):960--963, May 2011.
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[45]
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Johannes Rohrmann, Takayuki Tohge, Rob Alba, Sonia Osorio, Camila Caldana, Ryan
McQuinn, Samuel Arvidsson, Margaretha J. van der Merwe, Diego Mauricio
Riaño-Pachón, Bernd Mueller-Roeber, Zhangjun Fei, Adriano Nunes
Nesi, James J. Giovannoni, and Alisdair R. Fernie.
Combined transcription factor profiling, microarray analysis and
metabolite profiling reveals the transcriptional control of metabolic shifts
occurring during tomato fruit development.
Plant J, 68(6):999--1013, Dec 2011.
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[46]
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Diego Mauricio Riaño-Pachón, Sabrina Kleessen, Jost Neigenfind,
Pawel Durek, Elke Weber, Wolfgang R. Engelsberger, Dirk Walther, Joachim
Selbig, Waltraud X. Schulze, and Birgit Kersten.
Proteome-wide survey of phosphorylation patterns affected by nuclear
dna polymorphisms in arabidopsis thaliana.
BMC Genomics, 11:411, 2010.
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[47]
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Paulino Pérez-Rodríguez, Diego Mauricio Riaño-Pachón,
Luiz Gustavo Guedes Corrêa, Stefan A. Rensing, Birgit Kersten, and
Bernd Mueller-Roeber.
Plntfdb: updated content and new features of the plant transcription
factor database.
Nucleic Acids Res, 38(Database issue):D822--D827, Jan 2010.
[ bib |
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[48]
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Daniel Lang, Benjamin Weiche, Gerrit Timmerhaus, Sandra Richardt, Diego M.
Riaño-Pachón, Luiz G G. Corrêa, Ralf Reski, Bernd
Mueller-Roeber, and Stefan A. Rensing.
Genome-wide phylogenetic comparative analysis of plant
transcriptional regulation: a timeline of loss, gain, expansion, and
correlation with complexity.
Genome Biol Evol, 2:488--503, 2010.
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[49]
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Diego Mauricio Riaño-Pachón, Axel Nagel, Jost Neigenfind, Robert
Wagner, Rico Basekow, Elke Weber, Bernd Mueller-Roeber, Svenja Diehl, and
Birgit Kersten.
Gabipd: the gabi primary database--a plant integrative 'omics'
database.
Nucleic Acids Res, 37(Database issue):D954--D959, Jan 2009.
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[50]
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Diego Mauricio Riaño-Pachón, Luiz Gustavo Guedes Corrêa,
Raúl Trejos-Espinosa, and Bernd Mueller-Roeber.
Green transcription factors: a chlamydomonas overview.
Genetics, 179(1):31--39, May 2008.
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[51]
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Luiz Gustavo Guedes Corrêa, Diego Mauricio Riaño-Pachón,
Carlos Guerra Schrago, Renato Vicentini dos Santos, Bernd Mueller-Roeber,
and Michel Vincentz.
The role of bzip transcription factors in green plant evolution:
adaptive features emerging from four founder genes.
PLoS One, 3(8):e2944, 2008.
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[52]
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S. Balazadeh, D. M. Riaño-Pachón, and B. Mueller-Roeber.
Transcription factors regulating leaf senescence in arabidopsis
thaliana.
Plant Biol (Stuttg), 10 Suppl 1:63--75, Sep 2008.
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[53]
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Samuel Arvidsson, Miroslaw Kwasniewski, Diego Mauricio
Riaño-Pachón, and Bernd Mueller-Roeber.
Quantprime--a flexible tool for reliable high-throughput primer
design for quantitative pcr.
BMC Bioinformatics, 9:465, 2008.
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[54]
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Diego Mauricio Riaño-Pachón, Slobodan Ruzicic, Ingo Dreyer, and
Bernd Mueller-Roeber.
Plntfdb: an integrative plant transcription factor database.
BMC Bioinformatics, 8:42, 2007.
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[55]
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Sabeeha S. Merchant, Simon E. Prochnik, Olivier Vallon, Elizabeth H. Harris,
Steven J. Karpowicz, George B. Witman, Astrid Terry, Asaf Salamov, Lillian K.
Fritz-Laylin, Laurence Maréchal-Drouard, Wallace F. Marshall, Liang-Hu
Qu, David R. Nelson, Anton A. Sanderfoot, Martin H. Spalding, Vladimir V.
Kapitonov, Qinghu Ren, Patrick Ferris, Erika Lindquist, Harris Shapiro,
Susan M. Lucas, Jane Grimwood, Jeremy Schmutz, Pierre Cardol, Heriberto
Cerutti, Guillaume Chanfreau, Chun-Long Chen, Valérie Cognat, Martin T.
Croft, Rachel Dent, Susan Dutcher, Emilio Fernández, Hideya Fukuzawa,
David González-Ballester, Diego González-Halphen, Armin Hallmann,
Marc Hanikenne, Michael Hippler, William Inwood, Kamel Jabbari, Ming Kalanon,
Richard Kuras, Paul A. Lefebvre, Stéphane D. Lemaire, Alexey V.
Lobanov, Martin Lohr, Andrea Manuell, Iris Meier, Laurens Mets, Maria Mittag,
Telsa Mittelmeier, James V. Moroney, Jeffrey Moseley, Carolyn Napoli,
Aurora M. Nedelcu, Krishna Niyogi, Sergey V. Novoselov, Ian T. Paulsen, Greg
Pazour, Saul Purton, Jean-Philippe Ral, Diego Mauricio
Riaño-Pachón, Wayne Riekhof, Linda Rymarquis, Michael Schroda,
David Stern, James Umen, Robert Willows, Nedra Wilson, Sara Lana Zimmer, Jens
Allmer, Janneke Balk, Katerina Bisova, Chong-Jian Chen, Marek Elias, Karla
Gendler, Charles Hauser, Mary Rose Lamb, Heidi Ledford, Joanne C. Long, Jun
Minagawa, M Dudley Page, Junmin Pan, Wirulda Pootakham, Sanja Roje, Annkatrin
Rose, Eric Stahlberg, Aimee M. Terauchi, Pinfen Yang, Steven Ball, Chris
Bowler, Carol L. Dieckmann, Vadim N. Gladyshev, Pamela Green, Richard
Jorgensen, Stephen Mayfield, Bernd Mueller-Roeber, Sathish Rajamani,
Richard T. Sayre, Peter Brokstein, Inna Dubchak, David Goodstein, Leila
Hornick, Y Wayne Huang, Jinal Jhaveri, Yigong Luo, Diego Martínez,
Wing Chi Abby Ngau, Bobby Otillar, Alexander Poliakov, Aaron Porter, Lukasz
Szajkowski, Gregory Werner, Kemin Zhou, Igor V. Grigoriev, Daniel S. Rokhsar,
and Arthur R. Grossman.
The chlamydomonas genome reveals the evolution of key animal and
plant functions.
Science, 318(5848):245--250, Oct 2007.
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[56]
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Judith L. Gómez-Porras, Diego Mauricio Riaño-Pachón, Ingo
Dreyer, Jorge E. Mayer, and Bernd Mueller-Roeber.
Genome-wide analysis of aba-responsive elements abre and ce3 reveals
divergent patterns in arabidopsis and rice.
BMC Genomics, 8:260, 2007.
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[57]
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Diego Mauricio Riaño-Pachón, Ingo Dreyer, and Bernd Mueller-Roeber.
Orphan transcripts in arabidopsis thaliana: identification of several
hundred previously unrecognized genes.
Plant J, 43(2):205--212, Jul 2005.
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