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Sensory rewiring in an echolocator: genome-wide modification of retinogenic and auditory genes in the bat Myotis davidii.

Hudson NJ, Baker ML, Hart NS, Wynne JW, Gu Q, Huang Z, Zhang G, Ingham AB, Wang L, Reverter A - G3 (Bethesda) (2014)

Bottom Line: Using the naked mole rat as a reference, we found five functional genes (CYP1A2, RBP3, GUCY2F, CRYBB1, and GRK7) encoding visual proteins that have degenerated into pseudogenes in M. davidii but not P. alecto.In a second approach genome-wide codon usage bias (CUB) was compared between the two bat species.Together, they help explain how natural selection has reduced physiological costs associated with the development of a smaller eye poorly adapted to day vision but that also contribute to enhanced dim light vision and the hearing adaptations consonant with echolocation.

View Article: PubMed Central - PubMed

Affiliation: Computational and Systems Biology, CSIRO Agriculture Flagship, Queensland Bioscience Precinct, Brisbane, Queensland, Australia nick.hudson@csiro.au.

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Gene structure, partial amino acid ,and nucleotide alignments for five M. davidii pseudogenes. Red triangles illustrate the location of stop codons compared with P. alecto. Amino acid alignment surrounding the stop codon region in P. alecto and M. davidii. Asterisks represent stop codons. Nucleotide alignment between P. alecto and M. davidii corresponding to the same region in amino acid alignment. Gray nucleotides represent the region after a frame shift in M. davidii that leads to a premature stop codon (red).
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fig1: Gene structure, partial amino acid ,and nucleotide alignments for five M. davidii pseudogenes. Red triangles illustrate the location of stop codons compared with P. alecto. Amino acid alignment surrounding the stop codon region in P. alecto and M. davidii. Asterisks represent stop codons. Nucleotide alignment between P. alecto and M. davidii corresponding to the same region in amino acid alignment. Gray nucleotides represent the region after a frame shift in M. davidii that leads to a premature stop codon (red).

Mentions: Of the 19 visual perception genes identified as inactivated or missing in the naked mole rat, we identified five that have also become pseudogenes in M. davidii but not P. alecto (CYP1A2, RBP3, GUCY2F, CRYBB1, and GRK7; Figure 1). Taxonomically the naked mole rat H. glaber is placed within rodents. Despite some exceptional traits the overall properties of the H. glaber genome are similar to other mammals (Kim et al. 2011) making the comparison to the two bat species reasonable.


Sensory rewiring in an echolocator: genome-wide modification of retinogenic and auditory genes in the bat Myotis davidii.

Hudson NJ, Baker ML, Hart NS, Wynne JW, Gu Q, Huang Z, Zhang G, Ingham AB, Wang L, Reverter A - G3 (Bethesda) (2014)

Gene structure, partial amino acid ,and nucleotide alignments for five M. davidii pseudogenes. Red triangles illustrate the location of stop codons compared with P. alecto. Amino acid alignment surrounding the stop codon region in P. alecto and M. davidii. Asterisks represent stop codons. Nucleotide alignment between P. alecto and M. davidii corresponding to the same region in amino acid alignment. Gray nucleotides represent the region after a frame shift in M. davidii that leads to a premature stop codon (red).
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4199690&req=5

fig1: Gene structure, partial amino acid ,and nucleotide alignments for five M. davidii pseudogenes. Red triangles illustrate the location of stop codons compared with P. alecto. Amino acid alignment surrounding the stop codon region in P. alecto and M. davidii. Asterisks represent stop codons. Nucleotide alignment between P. alecto and M. davidii corresponding to the same region in amino acid alignment. Gray nucleotides represent the region after a frame shift in M. davidii that leads to a premature stop codon (red).
Mentions: Of the 19 visual perception genes identified as inactivated or missing in the naked mole rat, we identified five that have also become pseudogenes in M. davidii but not P. alecto (CYP1A2, RBP3, GUCY2F, CRYBB1, and GRK7; Figure 1). Taxonomically the naked mole rat H. glaber is placed within rodents. Despite some exceptional traits the overall properties of the H. glaber genome are similar to other mammals (Kim et al. 2011) making the comparison to the two bat species reasonable.

Bottom Line: Using the naked mole rat as a reference, we found five functional genes (CYP1A2, RBP3, GUCY2F, CRYBB1, and GRK7) encoding visual proteins that have degenerated into pseudogenes in M. davidii but not P. alecto.In a second approach genome-wide codon usage bias (CUB) was compared between the two bat species.Together, they help explain how natural selection has reduced physiological costs associated with the development of a smaller eye poorly adapted to day vision but that also contribute to enhanced dim light vision and the hearing adaptations consonant with echolocation.

View Article: PubMed Central - PubMed

Affiliation: Computational and Systems Biology, CSIRO Agriculture Flagship, Queensland Bioscience Precinct, Brisbane, Queensland, Australia nick.hudson@csiro.au.

Show MeSH
Related in: MedlinePlus