RNA-Seq transcriptome data of the liver of common Pekin, Muscovy, mule and Hinny ducks fed ad libitum or overfed

Duck species are known to have different ability to fatty liver production in response to overfeeding and gene expression analyses can help to characterize mechanisms involved in these differences. This data article reports the sequencing of RNAs extracted from the liver of Pekin and Muscovy duck species and of their reciprocal hybrids, Mule and Hinny ducks fed ad libitum or overfed. Libraries were prepared by selecting polyadenylated mRNAs and RNA Sequencing (RNASeq) was performed using Illumina HiSeq2000 platform. RNASeq data presented in this article were deposited in the NCBI sequence read archive (SRA) under the accession number SRP144764 and links to these data were also indicated in the Data INRAE repository (https://doi.org/10.15454/JJZ3QQ). Transcriptome analyses of these data were published in Hérault et al. (2019) and Liu et al. (2020).


a b s t r a c t
Duck species are known to have different ability to fatty liver production in response to overfeeding and gene expression analyses can help to characterize mechanisms involved in these differences. This data article reports the sequencing of RNAs extracted from the liver of Pekin and Muscovy duck species and of their reciprocal hybrids, Mule and Hinny ducks fed ad libitum or overfed. Libraries were prepared by selecting polyadenylated mRNAs and RNA Sequencing (RNASeq) was performed using Illumina HiSeq20 0 0 platform. RNASeq data presented in this article were deposited in the NCBI sequence read archive (SRA) under the accession number SRP144764 and links to these data were also indicated in the Data INRAE repository ( https://doi.org/10.15454/ JJZ3QQ ). Transcriptome analyses of these data were published in Hérault

Value of the Data
• These data represent hepatic transcriptomes from 4 different duck genetic types ("pure" species and hybrids) fed ad libitum or overfed and can be used to analyze responses to overfeeding and differences between genetic types. • Any researchers involved in liver gene expression and metabolism can benefit from these data and process raw FASTQ files. • These data can be included in meta-analyses to characterize responses to feeding in different duck breeds.

Data Description
Data provided in this article were obtained from liver samples of male Pekin ducks fed ad libitum ( n = 10) or overfed ( n = 10), Muscovy ducks fed ad libitum ( n = 9) or overfed ( n = 10), Mule duck hybrids fed ad libitum ( n = 10) or overfed ( n = 10) and Hinny duck hybrids fed ad libitum ( n = 10) or overfed ( n = 10). A liver weight increase was observed in overfed ducks when compared to ducks fed ad libitum ad libitum. This increase was more or less significant depending on the genetic type ( Fig. 1 ).
RNA were extracted from the liver of these ducks and sequenced. Raw sequences FASTQ files were deposited in the NCBI sequence read archive under the study accession number SRP144764 and can also be accessed through Data INRAE with doi:10.15454/JJZ3QQ. Duck sample names, genetic types, feeding conditions and liver weights, SRA accession number (experiment) for direct access to FASTQ files and number of reads are indicated in Table 1 .

Animals and experimental design
As described previously [1][2][3] male ducks from four different genetic types, i.e. Pekin, Muscovy and their crossbreed mule (male Muscovy duck x female Pekin duck) and Hinny (male     containing corn and corn meal, respectively indicated as 'Ad libitum' and 'Overfed' in Table 1 . Main characteristics of starting, growing and overfeeding diets are shown in Table 2 . Fourteen hours after the last meal, ducks were rendered unconscious and unable to feel pain by electronarcosis and were slaughtered by neck sectioning and bleeding. Immediately after bleeding, liver were weighted ( Table 1 ), and samples were collected, rapidly frozen in liquid nitrogen and stored at − 80 °C until RNA extraction.

RNA preparation and sequencing
Total RNA were extracted from liver samples using NucleoSpin ® RNA L kit (Macherey-Nagel SARL, Hoerdt, France) including guanidinium thiocyanate, silica membrane and on-column RNase-free DNase digestion according to the manufacturer's instructions without modification. RNA concentration was determined using a NanoDrop ND-10 0 0 Spectrophotometer (Thermo Scientific, Illkirch, France). Quality and integrity of RNA were checked using Lab-on-a-Chip Eukaryote Total RNA Nano chip and Bionalyzer 2100 device (Agilent Technologies France, Massy, France). RNA with absorbance ratio λ260 nm/ λ280 nm and λ260 nm/ λ230 nm > 1.8 and RNA integrity number (RIN) > 7.4 were selected (resulting in 9-10 RNA samples per genetic type and per diet).
Libraries preparation and sequencing experiments were performed at the Genotoul genomics facility GeT-PlaGe ( http://get.genotoul.fr/en/ ). RNA libraries were prepared according to Illumina's protocols without modification using the Illumina TruSeq RNA Sample Prep Kit v2 (Illumina, San Diego, CA). PolyA + mRNA were first isolated using oligo(dT) beads. Then, mRNA were frag-mented and reverse transcribed into double stranded cDNA. Adapters and hexamer tags ( Table 3 ) were ligated for subsequent identification. Ten cycles of PCR were applied to amplify libraries. Library quality was assessed using an Agilent Bioanalyser (Agilent Technologies France, Massy, France) and libraries were quantified by qPCR using the Kapa Library Quantification Kit. RNA sequencing was performed with the Illumina HiSeq20 0 0 SBS v3 sequencing kit on HiSeq20 0 0 Illumina platform using a paired-end read length of 2 × 100 pb. The libraries were sequenced on 14 different lanes, 6 samples per lane randomly selected as indicated in Table 3 . Numbers of raw reads are shown in Table 1 with an average 56.1 ± 1.6 M of reads per sample.

Ethics Statement
Liver samples were collected in a previous study [3] . They were reused later for RNA extraction and sequencing as described in this data paper, thus complying with the "reduce" recommendation of the 3R rules [4] . The animal experiments (number C22 237) were performed in accordance with the EU Directive 2010/63/EU for animal experiments. Animal experiments also complied with the ARRIVE guidelines [5] .

Declaration of Competing Interest
The authors declare that they have no known competing financial interests or personal relationships which have or could be perceived to have influenced the work reported in this article.