CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins

D Couvin, A Bernheim, C Toffano-Nioche… - Nucleic acids …, 2018 - academic.oup.com
CRISPR (clustered regularly interspaced short palindromic repeats) arrays and their
associated (Cas) proteins confer bacteria and archaea adaptive immunity against exogenous …

Rfam 14: expanded coverage of metagenomic, viral and microRNA families

…, S Griffiths-Jones, C Toffano-Nioche… - Nucleic Acids …, 2021 - academic.oup.com
Rfam is a database of RNA families where each of the 3444 families is represented by a
multiple sequence alignment of known RNA sequences and a covariance model that can be …

[HTML][HTML] Genes of the most conserved WOX clade in plants affect root and flower development in Arabidopsis

Y Deveaux, C Toffano-Nioche, G Claisse… - BMC Evolutionary …, 2008 - Springer
… for specific motifs other than the HD used to build the distance and phylogeny trees led
us to identify HMMs that were specific to each clade and located either within the N or the C

CRISPRCasdb a successor of CRISPRdb containing CRISPR arrays and cas genes from complete genome sequences, and tools to download and query lists of …

…, JP Vernadet, D Couvin, C Toffano-Nioche… - Nucleic acids …, 2020 - academic.oup.com
In Archaea and Bacteria, the arrays called CRISPRs for ‘clustered regularly interspaced short
palindromic repeats’ and the CRISPR associated genes or cas provide adaptive immunity …

Evolution of intron/exon structure of DEAD helicase family genes in Arabidopsis, Caenorhabditis, and Drosophila

N Boudet, S Aubourg, C Toffano-Nioche… - Genome …, 2001 - genome.cshlp.org
The DEAD box RNA helicase (RH) proteins are homologs involved in diverse cellular functions
in all of the organisms from prokaryotes to eukaryotes. Nevertheless, there is a lack of …

Genomic Exploration of the Hemiascomycetous Yeasts: 1. A set of yeast species for molecular evolution studies 1

…, S Potier, W Saurin, F Tekaia, C Toffano-Nioche… - FEBS …, 2000 - Wiley Online Library
… cerevisiae with C. elegans confirms its phylogenic relationship with the animal kingdom,
but the … Among the most frequent disease agents are the Hemiascomycetes C. albicans, …

Formation of the Arabidopsis pentatricopeptide repeat family

E Rivals, C Bruyere, C Toffano-Nioche… - Plant …, 2006 - academic.oup.com
… non-PPR motifs at their C terminus defines four distinct classes … elongation of the repeat
from the C terminus toward the N-… for the PPR region and the C-terminal one in PCMPs, which …

DEAD‐box RNA helicases in Arabidopsis thaliana: establishing a link between quantitative expression, gene structure and evolution of a family of genes

A Mingam, C ToffanoNioche… - Plant Biotechnology …, 2004 - Wiley Online Library
… , USA) was performed for 5 min at 95 C, followed by 40 cycles of 94 C for 30 s, 58 C for 30 s
and 72 C for 30 s, and, finally, 4 min at 72 C. PCR products were purified on QIAquick™ spin …

[HTML][HTML] Assessment of Bona Fide sRNAs in Staphylococcus aureus

W Liu, T Rochat, C Toffano-Nioche… - Frontiers in …, 2018 - frontiersin.org
Bacterial regulatory RNAs have been extensively studied for over a decade, and are
progressively being integrated into the complex genetic regulatory network. Transcriptomic arrays, …

The conserved regulatory RNA RsaE down-regulates the arginine degradation pathway in Staphylococcus aureus

…, F Razvi, A Pain, C Toffano-Nioche… - Nucleic acids …, 2018 - academic.oup.com
… Two duplicated C-rich motifs of RsaE can independently downregulate rocF expression.
The faster growth rate of ΔrsaE compared to its parental strain in media containing amino acids …