Sticklebacks

Question 1

In limnetic we find stickbacks with____

Answer 1

no pelvic spines

Question 2

Peichel(2001) used a ____probe to screen the geonomic and cDNA library.

Answer 2

(GA)15 probe, a microsatellite loci

Question 3

How did they find a region for the gene responsibke for pelvic spines?

Answer 3

Using msat found a regon called PelSpine, used BAC clones with Tbx4, Pitx1 and Pitx2

Question 4

What does the LOD score predict?

Answer 4

predicts the probability of getting the pattern of inheritance

Question 5

Pitx1 is a ____.It has a highly conserved DNA binding domain.

Answer 5

transcription factor

Question 6

What is a Riboprobe?

Answer 6

A probe that binds to mRNA(ex. Northern blot) but in this case th mRNA is not one a gel it is in a fish

Question 7

The msats tell us that PItx1 has something to do with pelvic spine but the ____did not

Answer 7

but the sequences tells us that the Paxton Lake and Japanese marine sticklebacks have the same AA sequence

Question 8

What is the complementation test used?

Answer 8

Crossing a benthic fish with a non-pelvis spine from some other species-pair lake, this would tell you if PItx1 was actully the mutation.

Question 9

The complementation test between Fox holes and Paxton showed what?

Answer 9

non-pelvic fish from both species produced non-pe;vic offspring so they do not complement one another. Tall bars on the left indicate spineless fish

Question 10

Genetic map dtermined that___was linked to pelvic fin reduction, they also concluded that Pitx1 was also in this region

Answer 10

LG7

Question 11

A new study with ___and Paxton lake benthic showed?

Answer 11

Friant Dam(FRIL)
3 vs 4 AA in the N-termins
PAXB Pitx1 allels are not expressed in the pelvic regions in F1 fish

Question 12

Fine mapping?

Answer 12

More individuals surveyed more msat genotypying
Looking upstream of Pitx1
Lead them 23 kb upstream of PItx1

Question 13

In the image in lecture 8 pg.24 show similaritys and differenece. If we think this part of the DNA is repsonsible for turning PItx1 on/off what do we do?

Answer 13

Cut it out and put it upstream of eGFP.

Question 14

The fragment called _____drove eGFP in pelvis. Did it work for the rescue method?

Answer 14

Pel-2.5kb

yes

SO large deletions in Pel are responsible for the no-pelvis phenotype in other stickleback pop.

Question 15

How do we do the whole genome at once?

Answer 15

need to make a reference genome
then we can mapp the sequence data from other fish to the reference