2025-10-30
ENA first public
ERC000011
ENA-CHECKLIST
Research Institute for Farm Animal Biology (FBN) Physiological Genomics Unit
INSDC center name
public
INSDC status
ERS21342423
SRA accession
E-MTAB-14546:43_Caec
Submitter Id
3
week
age
ArrayExpress
broker name
not collected
collection date
chicken
common name
Protocols: Birds (n =12 per strain) were assigned to infection or control groups in a 3 × 2 factorial design. The infected group (n = 18 birds) were inoculated orally with 0.2 mL NaCl with 500 infective eggs of A. galli and H. gallinarum at one week of age while the control group (n = 18 birds) was given a placebo (0.2 mL saline solution). Two weeks after inoculation, birds were killed and tissue samples were dissected, snap frozen in liquid nitrogene and stored at -80 °C. Frozen tissue samples from the jejunum, caecum, and liver (n = 108) were homogenized in liquid nitrogen to extract total RNA. Total RNA was extracted from approximately 40 mg of each sample, with subsequent steps of TRI reagent-based extraction (Sigma-Aldrich, Taufkirchen, Germany), DNaseI treatment (Roche Diagnostics, Mannheim, Germany ), and RNA purification (NucleoSpin RNA kit; Macherey-Nagel, Düren, Germany) according to the manufacturer's instructions.  The RNA concentration was determined through spectrophotometry using the NanoDrop ND-2000 (Peqlab, Erlangen, Germany) and RNA quality of final RNA was analyzed with the Bioanalyzer 2100 device (Agilent Technologies, Waldbronn, Germany).  Total RNA of one microgram (RIN > 8) was used for library preparation using an Illumina Stranded mRNA Prep, Ligation kit with a 10 PCR-cycle of amplification according to the manufacture's recommendation (Illumina). The libraries were quality checked on Bionalyzer for fragment length distribution and normalized to an equal concentration of 10nM prior to pooling.
description
premature
developmental stage
wild type genotype
genotype
not collected
geographic location (country and/or sea)
control
infect
not applicable
isolate
Gallus gallus
organism
Gallus gallus
organism
caecum
organism part
Gallus gallus
scientific_name
male
sex
Ross-308
strain
43_Caec
title