Notes 2/16/16

Looking for housekeeping intestine genes so that we can make sure our samples are accurate

over-expressed sequences match:

Snake 1: matches with an mRNA sequence from an intestine sample of an elephant fish, SLC15A1, SLC6A19

Snake 2: SLC15A1, SLC6A19

Snake 3: SLC15A1, SLC6A19, (SLC1A5 very very low expression, might just mean that duodenum or ileum)

Snake 4: SLC6A19, SLC15A1, (SLC1A5 very low expression)

Snake 5: SLC15A1, fairly high expression of SLC6A19, (SLC1A5 very low expression)

Snake 6: SLC15A1, SLC6A19, (SLC1A5 very low expression)

Housekeeping genes

BOAT1 (SLC6A19) solute carrier family 6 (neutral amino acid transporter), member 19, mRNA (housekeeping gene BOAT1) found in intestine and kidney

SLC15A1 protein coding gene: encodes an intestinal hydrogen peptide cotransporter that is a member of the solute carrier family 15

ASCT2 (SLC1A5) expressed in the kidney but expression is high in the jejunum and colon but lower in duodenum and ileum

STX2, COL3A1, GPBAR1: all from Castoe et al paper; examples of genes that have experienced positive selection (P < 0.001) on snake lineages and are related to prominent phenotypic or cellular traits of snakes- HOWEVER NOT HIGHLY EXPRESSED IN ANY OF OUR SNAKES