PCR Amplification of ycf1-3720F, ycf1-5500R from 4-12; 4-23

 

 

Result:  Our marker is in the gel but in the process of making the gel the EZ-Vision stain was not added to the marker which is the reason as to why there is no ladder seen toward the left on the gel.  Only one sample failed 4-14.  The others appear to have strong amplification.  When reading the table please note that (++) denotes a strong amplificaion, amplification (+), and (-) denotes weak ampflication.  The stain is Easy Vision One 6x and stains the marker so that a ladder may be seen. Some of the amplifications also yield other amplified genes other than the target sequence.  Trevor Rawlinson and Danny Cannon conducted the PCR with the ycf1 primers.
Channel 1 (top) Results Species
Marker (-) N/A
Control (Water) (-) N/A
4-12 (++) Ceratocentron fesselii
4-13 (++) Thrixspermum bromeliforme
4-14 (-) Holcoglossum flavescens
4-15 (++) Renanthera storei
4-16 (++) Trichoglottis amesiana
4-17 (++) Omoea philippinensis
4-18 (++) Gastrochilus acutifolius
4-19 (++) Trichoglottis bipunctata
4-20 (++) Malleola constricta
4-21 (++) Phalaenopsis lobbii
Channel 2 (bottom) Results Sepcies
Marker (-) N/A
4-22 (++) Armordorum siamense

 

2 thoughts on “PCR Amplification of ycf1-3720F, ycf1-5500R from 4-12; 4-23

  1. This is a fairly complete post. The gel is well labeled and the table is complete (but the 2nd table has two many rows and eats up space). Other suggestions follow:

    1) Read the Assignment directions for proper structure/content of the title.
    2) Put the text first, ahead of the image/table. The body of the post should be a brief summary of the samples (DNAs) used and mention the amplified region. Then you can talk about results. Some sentences are incomplete and others are run-ons. Please review for proper grammar/flow.
    3) EZ-Vision is not a marker. It is a loading dye and DNA stain mixture.
    4) How do you know that the extra bands are either non-specific or “genes”. Without further study, you can’t use either term with confidence. However, if non-specific, ycf1 sequencing is being performed with internal primers. If the additional bands are specific (duplication, etc), these primers may not circumvent the problem. Regardless, you should state specifically which amplification showed these extra products.
    5) Add a caption to your gel image with the following: Figure 1 (you already have a descriptive title on your image so just “Figure 1” is enough. Then, where you refer to the gel in the text, include (Figure 1) in your text. You could do similar with “Table 1”.
    6) Italicize the species names in the table.
    7) Uncheck “uncategorized” and check the subcategory “ycf1” of PCR results – do not choose any other category.

Please provide feedback, suggestions, or comments