Coffee flower evocation: essential and neglected
Description
These are Supplementary Files for a review on coffee flower evocation driven by environmental signals. There are - identification of conserved domains in temperature and daylength responsive protein isoforms identified in Coffea arabica, C. canephora and C. eugenioides and the orthologs in A. thaliana - analyses regarding cis-regulatory element frequency in promoters of temperature and daylength responsive genes - images of phenological stages that follow flower evocation, such as flower bud emission and fruit development
Files
Steps to reproduce
Data were identified at the TAIR, NCBI and the Coffee Hub, as follows: C. arabica var. Caturra Red (tetraploid, PRJNA 497895, accession CCC135-36, “autogenous population”) and C. eugenioides (diploid, PRJNA 497891, accession CCC68, “autogenous population”) at the National Center of Biotechnology Information (NCBI, http://www.ncbi.nlm.nih.gov/). C. canephora (doubled haploid, DH200-94, France) data are available at the Coffee Hub website (Dereeper et al. 2015. http://www.coffee-genome.org). A. thaliana data are available at The Arabidopsis Information Resource (TAIR, http://www.arabidopsis.org). The CD Search routine available at the NCBI was used to identify the conserved domains (https://www.ncbi.nlm.nih.gov/Structure/cdd/. Data bank version 3.20). Software packages used are: Felsenstein J (2009) PHYLIP (Phylogeny Inference Package) version 3 695 Distributed by the author Department of Genome Sciences, University of Washington, Seattle http://evolution gs washington edu/phylip html Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95-98 Higo K, Ugawa Y, Iwamoto M et al (1998) PLACE: a database of plant cis-acting regulatory DNA elements. Nucleic Acids Res 26:358-359