Difference between revisions of "Vargula tsujii"
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==Project Progress== | ==Project Progress== | ||
Primers that sit in gene | Primers that sit in gene | ||
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1F- GGGCTTCGAATGATTATCCA | 1F- GGGCTTCGAATGATTATCCA | ||
| + | |||
6R- AGCCAACATCTGCTCGAAGT | 6R- AGCCAACATCTGCTCGAAGT | ||
Primers that amplify the entire fragment | Primers that amplify the entire fragment | ||
| + | |||
5UTR FOR- ATCAGTCGAGAAACGAAACGTGATA | 5UTR FOR- ATCAGTCGAGAAACGAAACGTGATA | ||
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3UTR REV- ATAGTGTAGTTGCTACAGCTCACTCA | 3UTR REV- ATAGTGTAGTTGCTACAGCTCACTCA | ||
Revision as of 15:02, 13 December 2011
Project History
We conducted 454 sequencing on bodies minus eyes. The specimens were collected from Catalina Island, with specific data available on the phylogeny website.
I've made a galaxy history to assemble the transcriptome and look for luciferase genes [1]
There are 8 isotigs retrieved with an E-value of 0.001, when blasting the transcriptome with Vargula hilgendorfii luciferase. When blasted back to GenBank, all 8 of these have strong similarity to known ostracod luciferases.
These luciferase genes are also similar to kielin/crossveinless, which is involved in development.
There is also similarity to vitellogenein, through the VWD similarity.
Project Notes and Ideas
An interesting result is that a truncated luciferase from Vargula hilgendorfii produces bioluminescence, suggesting that one VWD domain is sufficient to catalyze the light reaction. Maeda 1996.
Project Progress
Primers that sit in gene
1F- GGGCTTCGAATGATTATCCA
6R- AGCCAACATCTGCTCGAAGT
Primers that amplify the entire fragment
5UTR FOR- ATCAGTCGAGAAACGAAACGTGATA
3UTR REV- ATAGTGTAGTTGCTACAGCTCACTCA
