Whole blood transcriptome data of five West African cattle breeds before and during an infection by Trypanosoma congolense IL1180, inference on bovine trypanotolerance

Gene expression data, scripts for bioinformatic and statistical analyses, and output tables related to the paper entitled “Whole blood transcriptome profiles of trypanotolerant and trypanosusceptible cattle highlight a differential modulation of metabolism and immune response during infection by Trypanosoma congolense”. A total of 120 RNA-seq libraries were generated from 30 cattle from five West African cattle breeds (6 animals per breed, all males, between 1 year and 2.5 years old). The breeds were: N’Dama (NDA) from Mali, Lagune (LAG) from Benin, Baoulé (BAO) from Burkina Faso, Borgou (BOR) from Benin, and Fulani Zebu (ZFU) from Burkina Faso. These animals were experimentally infected by Trypanosoma congolense IL1180. Blood samples of the 30 animals were collected at one date before infection (0), and at three dates after infection: at 20, 30 and 40 days post-infection (DPI), names DPI0, DPI.20, DPI.30 and DPI.40. RNA was extracted from the 30 cattle at these four dates and sequenced to produce 120 RNA-seq libraries. The raw sequences and the gene count table are stored in GEO GSE197108 (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE197108). The present data set provides the script files for raw sequences processing, gene count data processing, as well as output tables of gene count data processing, and output tables of biological functions analysis done with IPA®. Phenotypic analysis was published in Berthier et al 2015 "A Comparison of Phenotypic Traits Related to Trypanotolerance in Five West African Cattle Breeds Highlights the Value of Shorthorn Taurine Breeds." PLoS One 10, no. 5 (2015): e0126498. DOI: 10.1371/journal‧pone.0126498. SNP genotypes using the Illumina BovineSNP50.v2 SNP are freely available in the Cirad Dataverse, under the dataset entitled "Medium density genotyping dateset of 39 cattle from five West African breeds"