Table 2 Intraspecific variation within different species of the Gerbillus species
From: Cytochrome b shows signs of adaptive protein evolution in Gerbillus species from Egypt
Species | Collection site | Haplotype no. | Amino acid change (species specific) | Nucleotide change | Codon change | PROVEAN | Region restricted variants | Source | |
|---|---|---|---|---|---|---|---|---|---|
Predicted effect | Scores | ||||||||
G. amoenus | Wadi el Natroun | Hap5 | V>A30 | T90C | GTT>GCT | Neutral | − 2.127 | V>A30 | Current study |
Libya | Hap8 | I>N31 | T93A | ATT>AAT | Neutral | − 1.930 | I>N31 | Outgroup | |
El Faiyum, Wadi el Natroun Niger, Mauritania Libya, Mali | Hap1–9 | L>F223 | C668T, A670T | CTA>TTT | Neutral | − 1.553 | – | Current study + outgroup | |
El Faiyum | Hap4 | L>P263 | T789C | CTA>CCA | Deleterious | − 4.513 | L>P263 | Current study | |
Hap1–4 | M>T311 | T933C | ATA>ACA | Neutral | − 0.593 | M>T311 | |||
G. andersoni | Jordan Libya | Hap19, Hap21 | L>F173 | C518T, C520T | CTC>TTT | Neutral | − 1.978 | – | Outgroup |
Baltim, Dabaa, Israel | Hap13–18, Hap20, Hap22 | C518T | CTC>TTC | Neutral | – | Current study + outgroup | |||
Baltim, Dabaa, Libya, Jordan Israel | Hap13–22 | A>M203 | G608A, C609T | GCA>ATA | Neutral | − 1.459 | – – | ||
I>V221 | A662G, T664C | ATT>GTC | Neutral | 0.127 | – | ||||
Baltim | Hap13–16 | V>M283 | G848A | GTA>ATA | Neutral | − 0.015 | V>M283 | Current study | |
G. gerbillus | Tunisia, Morocco, Mali, Niger | Hap28–31 | V>M30 | G89A | GTA>ATA | Neutral | − 1.076 | – | Outgroup |
Dabaa, Mauritania, Tunisia, Morocco, Mali, Niger, Giza | Hap25–32 | A>S203 | G608T | GCA>TCA | Neutral | − 0.364 | – | Current study + outgroup | |
D. campestris | Tunisia | Hap36 | V>L30 | G89C | GTA>CTA | Neutral | − 0.647 | V>L30 | Outgroup |
Siwa, Niger, Mali, Tunisia | Hap33–36 | F>Y217 | T651A | TTC>TAC | Neutral | − 0.715 | – | Current study + outgroup | |
I>T229 | T687C | ATT>ACT | Neutral | 1.448 | – | ||||
V>I283 | G848A, A850T | GTA>ATT | Neutral | 0.183 | – | ||||
S. calurus | Egypt | Hap37 | V>I2 | T5A | GTA>GAA | Neutral | 0.034 | – | Outgroup |
I>L106 | A317C, T319C | ATT>CTC | Neutral | − 1.046 | – | ||||
I>V176 | A527G | ATC>GTC | Neutral | − 0.196 | – | ||||
L>M222 | C667A | ATC>ATA | Neutral | − 0.708 | – | ||||
F>L226 | T677C, C679A | TTC>CTA | Neutral | 1.225 | – | ||||
I>L229 | A686C | ATT>CTA | Neutral | 0.104 | – | ||||
L>S237 | T711C | TTA>TCA | Deleterious | − 4.159 | – | ||||
I>T295 | T885C, T886A | ATT>ACA | Neutral | − 1.700 | – | ||||