Total RNA and protein were extracted (TRIzol protocol; Invitrogen-Gibco, Grand Island, NY). Tissue was homogenized in the extraction reagent, mixed with chloroform, and centrifuged, and then the aqueous and the nonaqueous phases were separated. The nonaqueous phase was subjected to dialysis to recover the proteins (described later), whereas the aqueous phase containing the RNA was further purified (RNeasy Micro Kit; Qiagen, Valencia, CA). The amount of RNA isolated was quantitated spectrophotometrically and the concentration adjusted for subsequent reverse transcription. Reverse transcription using random primers was performed (Superscript First Strand Synthesis System for RT-PCR protocol; Invitrogen, Carlsbad, CA).
Real-time PCR was performed using primers designed based on the sequence of mouse C1qb mRNA (GenBank NM_009777; http://www.ncbi.nlm.nih.gov/Genbank; provided in the public domain by the National Center for Biotechnology Information, Bethesda, MD). The anticipated product size was 193 bp. Primer sequences were: CCAACGCGAACGAGAACTAT (forward) and GTGGTCACCTGGAAGGTGTT (reverse). To quantitate accurately the amount of C1q in the various samples and account for variations that may be introduced by variable efficiency of reverse transcription, the product of a housekeeping gene was also amplified from the same cDNA samples in separate reactions. The gene rps11 (Mus musculus similar to 40S ribosomal protein S11, GenBank XM_193290) encoding for a ribosomal protein, was used for this purpose. Primer sequences used for rps11 amplification were CGTGACGAAGATGAAGATGC (forward) and GCACATTGAATCGCACAGTC (reverse). The PCR amplification (SYBR Green; Applied Biosystems, Inc. [ABI], Foster City, CA) was performed at three cDNA dilutions (1, 10, and 100 ng) for each run, with each dilution in triplicate. Reactions were run at least twice for each mouse strain and age group, tissue, and cDNA level. Reactions were run on a sequence-detection system (Prism 7900HT; ABI), and results were analyzed (SDS 2.1 software; ABI). Normalized relative concentrations of C1q mRNA in the various age groups were compared with analysis of variance (ANOVA) and post hoc Fisher least-significant difference (LSD) testing.