Iris specimens were lysed by sonication and total RNA was recovered with Trizol (Invitrogen Corp., Carlsbad, CA, USA) and the RNeasy extraction kit (Qiagen, Valencia, CA, USA) as described previously.
31 Total RNA was reverse-transcribed into cDNA using random hexamer primers (Invitrogen Corp.) with reverse transcriptase (Superscript III; Invitrogen Corp.). All qPCR reactions, comprising the master mix (Power SYBR Green PCR Master Mix; Applied Biosystems, Inc., Carlsbad, CA, USA), were performed in triplicates in volumes of 10 μL in 384-well microtiter plates and run using the Roche LightCycler 480 System (Roche Diagnostics Corp., Indianapolis, IN, USA). All mRNA levels were measured as CT threshold levels.
Rpl13a was determined to be the most suitable housekeeping gene of four analyzed (
Actb,
Rna18s1,
Gapdh,
Rpl13a) using the NormFinder software.
32 The average ΔCT value, calculated from the WT irises for each gene, was used for calculating the fold change in gene expression in the SPARC- and Hevin-null irises by the 2
–ΔΔCT method. Primers used for qPCR were:
Rpl13a-forward, 5′-GAGGTCGGGTGGAAGTACCA-3′, and
Rpl13a-reverse, 5′-TGCATCTTGGCCTTTTCCTT-3′;
Col1a1-forward, 5′-CTTCACCTACAGCACCCTTGTG-3′, and
Col1a1-reverse, 5′-CTTGGTGGTTTTGTATTCGATGAC-3′;
Col8a1-forward, 5′-AGTACCCACACCTACCCCAA-3′, and
Col8a1-reverse, 5′-TGGCTAACGGTACTTCTCCTTT-3′;
Col8a2-forward, 5′-GGCTATGCCCCGGTAAAGTAT-3′, and
Col8a2-reverse, 5′-TCGGTAGAGGCATTTCCAAG-3′.