breed: Duroc × Landrace × Large White tissue: liver gender: male age: 170 d
Treatment protocol
The liver and colonic mucosa tissues were collected and preserved in liquid nitrogen.
Growth protocol
Pigs in the control group were offered a corn/soybean-based diet, while 230 g/kg purified corn starch (CS) was replaced with purified RPS in the RPS diet group. Diets were formulated according to the nutrient requirements of the National Research Council (1998). When animals reached the age of 120 days, diets were adapted to the nutrient requirements of the animals (finishing diet) and the amount of purified starch increased to 280 g of CS or RPS per kilogram of feed. Pigs had unlimited access to feed and water throughout the experimental period, which consisted of two 50-day trials in which the pigs consumed the growing diet (days 0-50) and finishing diet (days 51-100), respectively.
Extracted molecule
total RNA
Extraction protocol
The total RNA was extracted using the TRIzol reagent (Life Technologies, Carlsbad, CA, USA) according to the manufacturer’s instructions and then checked for RNA integrity and purity using an Agilent Bioanalyzer 2100 (Agilent Technologies, Santa Clara, CA, USA). The total qualified RNA was further purified using an RNeasy mini kit (QIAGEN, GmBH, Germany) and an RNase-Free DNase Set (QIAGEN, GmBH, Germany). Only those samples that had an OD260/OD280 ratio of approximately 2.0 and showed no degradation (RNA integrity number ≥ 7.0) were used to generate labeled targets.
Label
Cy3
Label protocol
The total RNA was amplified and labeled using a Low Input Quick Amp Labeling Kit (Agilent Technologies, Santa Clara, CA, USA), following the manufacturer’s instructions.
Hybridization protocol
Each slide was hybridized with 1.65μg Cy3-labeled cRNA using a Gene Expression Hybridization Kit (Agilent technologies, Santa Clara, CA, USA) in a hybridization oven.
Scan protocol
After 17 h of hybridization, the slides were washed with a Gene Expression Wash Buffer Kit (Agilent technologies, Santa Clara, CA, USA), according to the manufacturer’s instructions. The slides were then scanned on an Agilent Microarray Scanner (Agilent Technologies, Santa Clara, CA, USA).
Description
Gene expression in the liver of pigs fed CS diet
Data processing
data was extracted using Feature Extraction Software 10.7 (Agilent Technologies, Santa Clara, CA, USA). The raw data was normalized using a quantile algorithm, Gene Spring Software 11.0 (Agilent Technologies, Santa Clara, CA, USA).
