# Title of Dataset: Phenotypic data for "Redundancy analysis, genome-wide association studies, and the pigmentation of brown trout (Salmo trutta L.)" --- Brief summary of dataset contents, contextualized in experimental procedures and results Pictures of brown trout Samo Trutta L. from hatchery and wild origin on which phenotypic data have been acquired.The data set of phenotypic data is given in a separate file. ## Description of the Data and file structure This archive contains a total of 112 trout pictures and an Excel file associated to the paper by Valette, Leitwein et al., entitled “Redundancy analysis, genome-wide association studies, and the pigmentation of brown trout (Salmo trutta L.)”. It includes pictures from hatchery fish (N = 30) considered in this study; that refer to pictures of Atlantic (N = 15) and Mediterranean hatchery fish (N = 15), respectively. Hatchery fish have been labelled from P0 to P15 for Mediterranean fish, from P16 to P30 for Atlantic fish. It also includes pictures of wild-caught fish (N = 82) for the three small rivers tributaries from the Orb River catchment (France) considered in this study. Namely: 1 – Upper Orb River (individuals labelled from MLS1 to MLS23); 2 – Gravezon River (individuals labelled from MLS24 to MLS68); 3 – Mare River (individuals labelled from MLS69 to MLS82). Wild-caught fish could wild individual from local rivers, but also F1, F2 and backcrossed individuals resulting from crossing with hatchery fish used to supplement the river. See manuscript for further information. Labels for individual wild caught fish are reported on each picture and in the name of each individual file It also contains an Excel file contains metadata and the phenotypic data extracted from the 112 pictures according and analyzed by this author that co-authored the article. The full list of phenotypic data, their description and how data were acquired on each individual trout are provided as supplementary materials of the manuscript. It also contains the size of each individual fish Describe relationship between data files, missing data codes, other abbreviations used. Be as descriptive as possible. Pictures represent the original files on which data have been derived. Labels for each phenotypic variables are reported in the Supplementary tables of the paper and below; phenotypic data are indicated by "-" In the .csv file: * - Fish code is the label associated to pictures deposited in the Dryad archive on which analyses were performed. ¤ - Sex has been assessed using the presence/absence of amplification of the SRY locus described in Yano et al. (2013) (presence: M; absence: F). In order to minimize the record of amplification failure with PCR that would lead to the mis-assignment of an individual as a female, an anonymous microsatellite was also genotyped (locus Oneµ10; Scribner, Gust and Fields, 1996, Can. J. Fish. Aquat. Sci., 53: 833-841; doi: 10.1139/f95-254). Correct amplification of this anonymous locus using the same DNA template than the sex-based locus was considered to retrieve the right gender. For the Diam. PR variable, '-' means not assessed, as there is no red spots (column T), diameter (G) or presence of a ring around them (X) has no meaning. Label of the phenotypic variables used in the paper (also available in Supplementary materials of the paper): Phenotypic variables Description Nature Coding: Q = quantitative vs SQ = semiquantitative data) N.PR(A) Number of red spots in body area#A Q N.PR(B) Number of red spots in body area#B Q N.PR(C) Number of red spots in body area#C Q N.PR(D) Number of red spots in body area#D Q N.PR(E) Number of red spots in body area#E Q N.PR(F) Number of red spots in body area#F Q N.PN(A) Number of black spots in body area#A Q N.PN(B) Number of black spots in body area#B Q N.PN(C) Number of black spots in body area#C Q N.PN(D) Number of black spots in body area#D Q N.PN(E) Number of black spots in body area#E Q N.PN(F) Number of black spots in body area#F Q N.PR.Tot Total number of red spots over areas A to F Q N.PN.Tot. Total number of black spots over areas A to F Q N.P.OP Number of spots on the opercular bone Q Diam.PR Mean diameter of red spots Q Diam.PN Mean diameter of black spots Q Oc.PR White ring around red spots SQ (1= no ring; 2 = attenuated/thin ring, 3 = marked/thick ring) Oc.PN White ring around black spots SQ (1= no ring; 2 = attenuated/thin ring, 3 = marked/thick ring) Fr.D Fringe on the dorsal fin SQ (1= no fringe; 2 = white fringe, 3 = black & white fringe) Fr.An Fringe on the anal fin SQ (1= no fringe; 2 = white fringe, 3 = black & white fringe) Fr.P Fringe on the pelvic fins SQ (1= no fringe; 2 = white fringe, 3 = black & white fringe) Fr.Ad Fringe on the adipose fin SQ (1= no fringe; 2 = pale red fringe, 3 = red fringe) Fr.C Fringe on the caudal fin SQ (1= no fringe; 2 = pale red fringe, 3 = red fringe) L.Lat Visibility of the lateral line SQ (1 = not visible; 2 = partially visible; 3 = fully visible) Parr Presence of parr marks SQ (1 = absence; 2 = presence) N.Parr Number of parr marks Q Macrost. Macrostigma spot(large black dot on pre-opercular bone) SQ (1 = absence; 2 = partially visible/diluted; 3 = fully visible) Zeb Zebras on flank SQ (1 = absence; 2 = presence) N. Zeb Number of zebras Q Illustration of body areas #A to #F are reported in the "Body_areas"" file and is also available in the supplementary materials of the paper. ## Sharing/access Information Links to other publicly accessible locations of the data: NO Was data derived from another source?: NO If yes, list source(s):