Useful Info | ArmstrongGenetics3

Below is a plastid gene map from a member of subtribe Aeridinae, Phalaenopsis aphrodite. The three plastid targets are identified on this map. You’ll notice that the names atpF and petB have asterisks next to them. This designates coding sequences that contain introns. For these targets, the majority of what was amplified is the intron region. Remember that the typical plastid genome is divided into the large single copy region (LSC), two inverted repeats (IR) and a small single copy region (SSC). Please note where your target, if it was one of these three, is located. Click on the map image to enlarge.

Phalaenopsis aphrodite: photo by Allen Black, http://www.orchidspecies.com/orphotdir/phalformosana.jpg

Figure from Chang et al., 2006.

Literature cited:

Chang, C-C, I-P Lin, T-Y Chow, H-H Chen, W-H Chen, C-H Cheng, S-M Liu, C-C Chang and S-M Chaw. 2006. The Chloroplast Genome of Phalaenopsis aphrodite (Orchidaceae): Comparative Analysis of Evolutionary Rate with that of Grasses and Its Phylogenetic Implications. Mol Biol Evol 23(2): 279-291.

As part of agarose gel electrophoresis of your extracted DNAs or PCR products, you loaded a sample of a size marker. For your PCR gels, the image here will help you identify which marker you used to include in your results post and to estimate the size of your products. Determine a rough estimate of the size of your PCR products by comparing the relative migration of your products to the migration patterns of DNA fragments in this marker. For example, include a statement in your PCR post such as “All my PCR products ran slower/faster than the ___ bp fragment of the Molecular Mass Ruler. Therefore, these products are smaller/larger than ___ bp.”

All PCR gel images have been added to the Media Library. Please find yours and edit in any software that allows you to add text to an image (such as Picasa – a free download).