biostudies-arrayexpressUnknownTranscriptomicsGenomicsProteomicsYajuan DONGIllumina NovaSeq 6000ILLUMINARNA-seq of coding RNABos taurusBos taurushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-16062Placental lipid metabolism is a critical regulator of fetal growth and development. This study aims to identify candidate miRNAs and their target genes influencing placental lipid metabolism in famale cattle through integrated multi-omics analysis, and to elucidate their regulatory mechanisms, thereby providing a reference for the selection of calf birth weight.biostudies-arrayexpressLibrary Construction - After total RNA was extracted, eukaryotic mRNA was enriched by Oligo(dT) beads.Then the enriched mRNA was fragmented into short fragments using fragmentation buffer and reversly transcribed into cDNA by using NEBNext Ultra RNA Library Prep Kit for Illumina(NEB #7530,New England Biolabs, Ipswich, MA, USA).The purified double-stranded cDNA fragments were end repaired, A base added, and ligated to Illumina sequencing adapters.The ligation reaction was purified with the AMPure XP Beads(1.0X).Ligated fragments were subjected to size selection by agarose gel electrophoresis and polymerase chain reaction (PCR) amplified.The resulting cDNA library was sequenced using Illumina Novaseq6000 by Gene Denovo Biotechnology Co. (Guangzhou, China).Sequencing - Reads obtained from the sequencing machines includes raw reads containing adapters or low quality bases which will affect the following assembly and analysis. Thus, to get high quality clean reads, reads were further filtered by fastp (version 0.18.0). The parameters were as follows: 1) removing reads containing adapters; 2) removing reads containing more than 10% of unknown nucleotides (N); 3) removing low quality reads containing more thanNucleic Acid Extraction - Total RNA was extracted using Trizol reagent kit (Invitrogen, Carlsbad, CA,USA) according to the manufacturer’s protocol. RNA quality was assessed on an Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA, USA) and checked using RNase free agarose gel electrophoresis.Sample Collection - The six experimental cattle used in this study were sourced from Shandong Zhaofu Animal Husbandry Technology Co., Ltd. The barns provided adequate lighting and ventilation, with suitable temperature and humidity, and all animals were maintained under consistent feeding conditions. The study protocol was approved by the Qingdao Agricultural University Institutional Animal Care and Use Committee (IACUC) (Approval No. DKY20220805, dated August 5, 2022). Placental tissues were collected postpartum, and their length, width, thickness, and weight were measured. Cotyledon tissues from the same anatomical location were collected and stored in liquid nitrogen at -80°C. calf birth weight, body height, chest circumference, and waistline were recorded. Based on placental weight, the cattle were divided into Group P (≥5.5 kg, n=3) and Group S (<5.5 kg, n=3).OrganizationMINSEQE ScoreAssays and DataMAGE-TAB FilesYajuan DONGfalseplacentaRNA-seq of blcattle black cattlePlacental lipid metabolism is a critical regulator of fetal growth and development. This study aims to identify candidate miRNAs and their target genes influencing placental lipid metabolism in famale cattle through integrated multi-omics analysis, and to elucidate their regulatory mechanisms, thereby providing a reference for the selection of calf birth weight.2025-11-24T00:00:00Z2025-11-24T02:02:25.369Z2025-11-13T15:24:08.402ZE-MTAB-16062ERP184118EFO_0002944EFO_0004170EFO_0005518EFO_0003738EFO_0004184