Brown-midrib genes in maize and their efficiency in dairy cow feeding. Perspectives for breeding improved silage maize targeting gene modifications in the monolignol and p-hydroxycinnamate pathways, Maydica, vol.62, pp.1-19, 2017. ,
Genetic variation for organic matter and cell wall digestibility in silage maize. Lessons from a 34-year long experiment with sheep in digestibility crates, Maydica, vol.49, pp.115-126, 2004. ,
Genetic and molecular basis of grass cell-wall degradability. I. Lignin-cell wall matrix interactions, Comptes Rendus Biologies, vol.327, pp.455-465, 2004. ,
Plant cell wall polymers as precursors for biofuels, Curr Opin Plant Biol, vol.13, pp.305-312, 2010. ,
Biomass recalcitrance. Part I: The chemical compositions and physical structures affecting the enzymatic hydrolysis of lignocellulose, Biofuels Bioproducts and Biorefining, vol.6, pp.465-482, 2012. ,
Recent advances in understanding the role of cellulose accessibility in enzymatic hydrolysis of lignocellulosic substrates, Curr Opin Biotechnol, vol.27, pp.150-158, 2014. ,
Search of a Maize Ideotype for Cell Wall Enzymatic Degradability Using Histological and Biochemical Lignin Characterization, J Agric Food Chem, vol.53, pp.5872-5881, 2005. ,
Genetic and genomic approaches for improving biofuel production from maize, Euphytica, vol.170, pp.183-202, 2009. ,
QTL mapping in testcrosses of European flint lines of maize: II. Comparison of different testers for forage quality traits, Crop science, vol.37, pp.1913-1922 ,
QTL mapping for resistance against the European corn borer (Ostrinia nubilalis H.) in early maturing European dent germplasm, Theoretical and Applied Genetics, vol.101, pp.907-917 ,
Genetic Analysis and QTL Mapping of Cell Wall Digestibility and Lignification in Silage Maize, Crop Science, vol.41, p.690, 2001. ,
Genetic analysis in recombinant inbred lines of early dent forage maize, vol.47, pp.9-20, 2002. ,
Genetic mapping and analysis of quantitative trait loci affecting fiber and lignin content in maize, Theor Appl Genet, vol.106, p.12647061, 2003. ,
Genetic variation and QTL mapping of para-coumaric and ferulic acid contents in maize stover at silage harvest, Maydica, vol.48, pp.75-84, 2003. ,
Characterization of quantitative trait loci affecting fiber and lignin in maize (Zea mays L.), Maydica, vol.48, pp.283-292, 2003. ,
Combined Large-Scale Phenotyping and Transcriptomics in Maize Reveals a Robust Growth Regulatory Network. Plant Physiol, vol.170, pp.1848-1867, 2016. ,
Combining Quantitative Genetics Approaches with Regulatory Network Analysis to Dissect the Complex Metabolism of the Maize Kernel, Plant Physiol, vol.170, pp.136-146, 2016. ,
Searching for an Accurate Marker-Based Prediction of an Individual Quantitative Trait in Molecular Plant Breeding, Front Plant Sci, vol.8, p.1182, 2017. ,
The ZmASR1 protein influences branched-chain amino acid biosynthesis and maintains kernel yield in maize under water-limited conditions, Plant Physiol, vol.157, pp.917-936, 2011. ,
SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data, Bioinformatics, vol.28, pp.3211-3217, 2012. ,
URL : https://hal.archives-ouvertes.fr/hal-00748990
CATdb: a public access to Arabidopsis transcriptome data from the URGV-CATMA platform, Nucleic Acids Res, vol.36, pp.986-990, 2008. ,
URL : https://hal.archives-ouvertes.fr/hal-01203869
Gene Expression Omnibus: NCBI gene expression and hybridization array data repository, Nucleic Acids Res, vol.30, pp.207-210, 2002. ,
TriAnnot: A Versatile and High Performance Pipeline for the Automated Annotation of Plant Genomes, Front Plant Sci, vol.3, 2012. ,
URL : https://hal.archives-ouvertes.fr/hal-00753407
Structural and functional partitioning of bread wheat chromosome 3B, Science, vol.345, p.1249721, 2014. ,
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs, Nucleic Acids Res, vol.25, pp.3389-3402, 1997. ,
tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence, Nucleic Acids Res, vol.25, pp.955-964, 1997. ,
RNAmmer: consistent and rapid annotation of ribosomal RNA genes, Nucleic Acids Res, vol.35, pp.3100-3108, 2007. ,
Automated generation of heuristics for biological sequence comparison, BMC Bioinformatics, vol.6, p.31, 2005. ,
Gene prediction with a hidden Markov model and a new intron submodel, Bioinformatics, vol.19, issue.2, pp.215-225, 2003. ,
Efficient plant gene identification based on interspecies mapping of full-length cDNAs, DNA Res, vol.17, pp.271-279, 2010. ,
Pfam 10 years on: 10,000 families and still growing, Brief Bioinformatics, vol.9, pp.210-219, 2008. ,
The Pfam protein families database, Nucleic Acids Res, vol.38, pp.211-222, 2010. ,
URL : https://hal.archives-ouvertes.fr/hal-01294685
InterProScan-an integration platform for the signature-recognition methods in InterPro, Bioinformatics, vol.17, pp.847-848, 2001. ,
PROSITE, a protein domain database for functional characterization and annotation, Nucleic Acids Res, vol.38, pp.161-166, 2010. ,
SMART 6: recent updates and new developments, Nucleic Acids Res, vol.37, pp.229-232, 2009. ,
GenomeView: a next-generation genome browser, Nucleic Acids Res, vol.40, p.12, 2012. ,
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data, Bioinformatics, vol.26, pp.139-140, 2010. ,
Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation, Nucleic Acids Res, vol.40, pp.4288-4297, 2012. ,
MAPMAN: a user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes, Plant J, vol.37, pp.914-939, 2004. ,
Lê Cao K-A. mixOmics: An R package for 'omics feature selection and multiple data integration, PLoS Comput Biol, vol.13, p.1005752, 2017. ,
Cytoscape: a software environment for integrated models of biomolecular interaction networks, Genome Res, vol.13, pp.2498-2504, 2003. ,
Computing topological parameters of biological networks, Bioinformatics, vol.24, pp.282-284, 2008. ,
Improved detection of motifs with preferential location in promoters, Genome, vol.53, pp.739-752, 2010. ,
Core Promoter Plasticity Between Maize Tissues and Genotypes Contrasts with Predominance of Sharp Transcription Initiation Sites, Plant Cell, vol.27, pp.3309-3320, 2015. ,
PLACE: a database of plant cis-acting regulatory DNA elements, Nucleic Acids Res, vol.26, pp.358-359, 1998. ,
Arabidopsis gene regulatory information server, an information resource of Arabidopsis cis-regulatory elements and transcription factors, BMC Bioinformatics, vol.4, p.25, 2003. ,
Primer-BLAST: a tool to design target-specific primers for polymerase chain reaction, BMC Bioinformatics, vol.13, p.134, 2012. ,
Kinetics of Phenylpropanoid Gene Expression in Maize Growing Internodes: Relationships with Cell Wall Deposition, Crop Science, vol.49, p.211, 2009. ,
Spatial gradients in cell wall composition and transcriptional profiles along elongating maize internodes, BMC Plant Biol, vol.14, p.24423166, 2014. ,
Complementation contributes to transcriptome complexity in maize (Zea mays L.) hybrids relative to their inbred parents, Genome Research, vol.22, pp.2445-2454, 2012. ,
Plant aldo-keto reductases (AKRs) as multi-tasking soldiers involved in diverse plant metabolic processes and stress defense: A structure-function update, J Plant Physiol, vol.179, pp.40-55, 2015. ,
Genome-wide analysis and environmental response profiling of the FK506-binding protein gene family in maize (Zea mays L.), Gene, vol.498, pp.212-222, 2012. ,
Cell adhesion in plants is under the control of putative Ofucosyltransferases, Development, vol.143, pp.2536-2540, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-01602505
Heat-shock protein 40 is the key farnesylation target in meristem size control, abscisic acid signaling, and drought resistance, Genes Dev, vol.31, pp.2282-2295, 2018. ,
ERF-VII members exhibit synergistic and separate roles in Arabidopsis, Plant Signaling & Behavior, vol.12, p.1329073, 2017. ,
Group VII Ethylene Response Factors in Arabidopsis: Regulation and Physiological Roles, Plant Physiol, vol.176, pp.1143-1155, 2018. ,
Isolation and functional analysis of Arabidopsis stress-inducible NAC transcription factors that bind to a drought-responsive cis-element in the early responsive to dehydration stress 1 promoter, Plant Cell, vol.16, pp.2481-2498, 2004. ,
Time-evolving genetic networks reveal a NAC troika that negatively regulates leaf senescence in Arabidopsis, Proc Natl Acad Sci USA, vol.115, pp.4930-4939, 2018. ,
The Arabidopsis NPR1 disease resistance protein is a novel cofactor that confers redox regulation of DNA binding activity to the basic domain/leucine zipper transcription factor TGA1, Plant Cell, vol.15, pp.2181-2191, 2003. ,
Nuclear events in ethylene signaling: a transcriptional cascade mediated by ETHYLENE-INSENSITIVE3 and ETHYLENE-RESPONSE-FACTOR1, Genes Dev, vol.12, pp.3703-3714, 1998. ,
A role for the GCC-box in jasmonatemediated activation of the PDF1.2 gene of Arabidopsis, Plant Physiol, vol.132, pp.1020-1032, 2003. ,
Genome-Wide Association Study Reveals the Genetic Basis of Stalk Cell Wall Components in Maize, PLoS ONE, vol.11, p.158906, 2016. ,
Nonsyntenic genes drive highly dynamic complementation of gene expression in maize hybrids, Plant Cell, vol.26, pp.3939-3948, 2014. ,
Stability of Single-Parent Gene Expression Complementation in Maize Hybrids upon Water Deficit Stress, Plant Physiol, vol.173, pp.1247-1257, 2017. ,
A MYB/ZML Complex Regulates Wound-Induced Lignin Genes in Maize, Plant Cell, vol.27, pp.3245-3259, 2015. ,
Plant cysteine oxidases control the oxygen-dependent branch of the N-end-rule pathway, Nat Commun, vol.5, p.3425, 2014. ,
Plant cysteine oxidases are dioxygenases that directly enable arginyl transferase-catalysed arginylation of N-end rule targets, Nat Commun, vol.8, p.14690, 2017. ,
Cross-kingdom comparison of transcriptomic adjustments to low-oxygen stress highlights conserved and plant-specific responses, Plant Physiol, vol.152, pp.1484-1500, 2010. ,
Universal stress protein HRU1 mediates ROS homeostasis under anoxia, Nature Plants, vol.1, p.15151, 2015. ,
Methyl jasmonate and salicylic acid are able to modify cell wall but only salicylic acid alters biomass digestibility in the model grass Brachypodium distachyon, Plant Science, vol.263, pp.46-54, 2017. ,
Jasmonate signalling in Arabidopsis involves SGT1b-HSP70-HSP90 chaperone complexes, Nat Plants, vol.1, 2015. ,
HSP90 regulates temperature-dependent seedling growth in Arabidopsis by stabilizing the auxin co-receptor F-box protein TIR1, Nat Commun, vol.7, p.10269, 2016. ,
Endogenous Arabidopsis messenger RNAs transported to distant tissues, Nat Plants, vol.1, p.15025, 2015. ,
Genome-wide analysis of immunophilin FKBP genes and expression patterns in Zea mays, Genet Mol Res, vol.11, p.22782589, 2012. ,
Arabidopsis exocyst subcomplex containing subunit EXO70B1 is involved in autophagy-related transport to the vacuole, Traffic, vol.14, pp.1155-1165, 2013. ,
Characterization of two novel aldo-keto reductases from Arabidopsis: expression patterns, broad substrate specificity, and an open active-site structure suggest a role in toxicant metabolism following stress, J Mol Biol, vol.392, pp.465-480, 2009. ,
Gene expression and promoter analysis of a novel tomato aldo-keto reductase in response to environmental stresses, J Plant Physiol, vol.200, pp.35-44, 2016. ,
Mutational analysis of S12 protein and implications for the accuracy of decoding by the ribosome, J Mol Biol, vol.374, pp.1065-1076, 2007. ,
Prolyl dihydroxylation of unassembled uS12/Rps23 regulates fungal hypoxic adaptation, vol.6, p.28563, 2017. ,