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Transcriptomic and metabolomic profiling of ionic liquid stimuli unveils enhanced secondary metabolism in Aspergillus nidulans.

Alves PC, Hartmann DO, Núñez O, Martins I, Gomes TL, Garcia H, Galceran MT, Hampson R, Becker JD, Silva Pereira C.

BMC Genomics. 2016 Apr 12;17(1):284. doi: 10.1186/s12864-016-2577-6.


Assessment of fight outcome is needed to activate socially driven transcriptional changes in the zebrafish brain.

Oliveira RF, Simões JM, Teles MC, Oliveira CR, Becker JD, Lopes JS.

Proc Natl Acad Sci U S A. 2016 Feb 2;113(5):E654-61. doi: 10.1073/pnas.1514292113. Epub 2016 Jan 19.


A Transcriptome Atlas of Physcomitrella patens Provides Insights into the Evolution and Development of Land Plants.

Ortiz-Ramírez C, Hernandez-Coronado M, Thamm A, Catarino B, Wang M, Dolan L, Feijó JA, Becker JD.

Mol Plant. 2016 Feb 1;9(2):205-20. doi: 10.1016/j.molp.2015.12.002. Epub 2015 Dec 11.


Hydroxyproline O-arabinosyltransferase mutants oppositely alter tip growth in Arabidopsis thaliana and Physcomitrella patens.

MacAlister CA, Ortiz-Ramírez C, Becker JD, Feijó JA, Lippman ZB.

Plant J. 2016 Jan;85(2):193-208. doi: 10.1111/tpj.13079. Epub 2015 Dec 27.


Intercellular communication in Arabidopsis thaliana pollen discovered via AHG3 transcript movement from the vegetative cell to sperm.

Jiang H, Yi J, Boavida LC, Chen Y, Becker JD, Köhler C, McCormick S.

Proc Natl Acad Sci U S A. 2015 Oct 27;112(43):13378-83. doi: 10.1073/pnas.1510854112. Epub 2015 Oct 14.


Genome-Wide Analysis of PAPS1-Dependent Polyadenylation Identifies Novel Roles for Functionally Specialized Poly(A) Polymerases in Arabidopsis thaliana.

Kappel C, Trost G, Czesnick H, Ramming A, Kolbe B, Vi SL, Bispo C, Becker JD, de Moor C, Lenhard M.

PLoS Genet. 2015 Aug 25;11(8):e1005474. doi: 10.1371/journal.pgen.1005474. eCollection 2015 Aug.


Transcriptional profiling of Arabidopsis root hairs and pollen defines an apical cell growth signature.

Becker JD, Takeda S, Borges F, Dolan L, Feijó JA.

BMC Plant Biol. 2014 Aug 1;14:197. doi: 10.1186/s12870-014-0197-3.


Elucidating how the saprophytic fungus Aspergillus nidulans uses the plant polyester suberin as carbon source.

Martins I, Hartmann DO, Alves PC, Martins C, Garcia H, Leclercq CC, Ferreira R, He J, Renaut J, Becker JD, Silva Pereira C.

BMC Genomics. 2014 Jul 21;15:613. doi: 10.1186/1471-2164-15-613.


Potential mechanisms underlying response to effects of the fungicide pyrimethanil from gene expression profiling in Saccharomyces cerevisiae.

Gil FN, Becker JD, Viegas CA.

J Agric Food Chem. 2014 Jun 11;62(23):5237-47. doi: 10.1021/jf5007775. Epub 2014 May 28.


V-ATPase proton pumping activity is required for adult zebrafish appendage regeneration.

Monteiro J, Aires R, Becker JD, Jacinto A, Certal AC, Rodríguez-León J.

PLoS One. 2014 Mar 26;9(3):e92594. doi: 10.1371/journal.pone.0092594. eCollection 2014.


Evolutionarily conserved mechanisms of male germline development in flowering plants and animals.

Pereira PA, Navarro-Costa P, Martinho RG, Becker JD.

Biochem Soc Trans. 2014 Apr;42(2):377-82. doi: 10.1042/BST20130261. Review.


The Sinorhizobium meliloti EmrR regulator is required for efficient colonization of Medicago sativa root nodules.

Santos MR, Marques AT, Becker JD, Moreira LM.

Mol Plant Microbe Interact. 2014 Apr;27(4):388-99. doi: 10.1094/MPMI-09-13-0284-R.


Heat and water stress induce unique transcriptional signatures of heat-shock proteins and transcription factors in grapevine.

Rocheta M, Becker JD, Coito JL, Carvalho L, Amâncio S.

Funct Integr Genomics. 2014 Mar;14(1):135-48.


Transthyretin proteins regulate angiogenesis by conferring different molecular identities to endothelial cells.

Nunes RJ, de Oliveira P, Lages A, Becker JD, Marcelino P, Barroso E, Perdigoto R, Kelly JW, Quintas A, Santos SC.

J Biol Chem. 2013 Nov 1;288(44):31752-60. doi: 10.1074/jbc.M113.469858. Epub 2013 Sep 12.


Arabidopsis tetraspanins are confined to discrete expression domains and cell types in reproductive tissues and form homo- and heterodimers when expressed in yeast.

Boavida LC, Qin P, Broz M, Becker JD, McCormick S.

Plant Physiol. 2013 Oct;163(2):696-712. doi: 10.1104/pp.113.216598. Epub 2013 Aug 14.


LegumeGRN: a gene regulatory network prediction server for functional and comparative studies.

Wang M, Verdier J, Benedito VA, Tang Y, Murray JD, Ge Y, Becker JD, Carvalho H, Rogers C, Udvardi M, He J.

PLoS One. 2013 Jul 3;8(7):e67434. doi: 10.1371/journal.pone.0067434. Print 2013.


cell- and tissue-specific transcriptome analyses of Medicago truncatula root nodules.

Limpens E, Moling S, Hooiveld G, Pereira PA, Bisseling T, Becker JD, Küster H.

PLoS One. 2013 May 29;8(5):e64377. doi: 10.1371/journal.pone.0064377. Print 2013. Erratum in: PLoS One. 2014;9(1). doi:10.1371/annotation/d8bce646-4127-410a-b4dd-d2d2779a4745.


Comparative transcriptomic analysis of the Burkholderia cepacia tyrosine kinase bceF mutant reveals a role in tolerance to stress, biofilm formation, and virulence.

Ferreira AS, Silva IN, Oliveira VH, Becker JD, Givskov M, Ryan RP, Fernandes F, Moreira LM.

Appl Environ Microbiol. 2013 May;79(9):3009-20. doi: 10.1128/AEM.00222-13. Epub 2013 Feb 22.


Expression-based and co-localization detection of arabinogalactan protein 6 and arabinogalactan protein 11 interactors in Arabidopsis pollen and pollen tubes.

Costa M, Nobre MS, Becker JD, Masiero S, Amorim MI, Pereira LG, Coimbra S.

BMC Plant Biol. 2013 Jan 8;13:7. doi: 10.1186/1471-2229-13-7.


FACS-based purification of Arabidopsis microspores, sperm cells and vegetative nuclei.

Borges F, Gardner R, Lopes T, Calarco JP, Boavida LC, Slotkin RK, Martienssen RA, Becker JD.

Plant Methods. 2012 Oct 17;8(1):44. doi: 10.1186/1746-4811-8-44.

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