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Parallel signatures of sequence evolution among hearing genes in echolocating mammals: an emerging model of genetic convergence

Davies, K T J, Cotton, J A, Kirwan, J D, Teeling, E C, Rossiter, S J·2012·Heredity
DOI 10.1038/hdy.2011.119
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  • Molecular convergence of echolocation between toothed whales and bats has usually been constrained to gene sequences.

    “Alth ough m ole cu lar conv er g en ce of ech olo cation b etween to oth ed whales an d bats h a s be en studie d p reviously, i t has usua l ly be en const raine d to gene sequences ( Davies et al . 2012 ;S hen et a l. 2012 ;Liu et a l. 2014 ;Thom a s and Hahn 2015 ;Zou and Zhang 2015 ;Lambert et al. 2017 ;Marcovitz et al. 2019 )”

    From Practical Guidance and Workflows for Identifying Fast Evolving Non-Coding Genomic Elements Using PhyloAcc (2024) · cites this paper as Davies et al. 2012

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Research works printed but not linked: 49

  1. Accetturo M, Creanza TM, Santoro C, Tria G, Giordano A, Battagliero S et al. (2010). Finding new genes for non-syndromic hearing loss through an in silico prioritization study. PLoS ONE 5: e12742. · DOI
  2. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W et al. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389–3402. · DOI · Paper page
  3. Aminetzach YT, Srouji JR, Kong CY, Hoekstra HE (2009). Convergent evolution of novel protein function in shrew and lizard venom. Curr Biol 19: 1925–1931. · DOI
  4. Bekaert M, Teeling EC (2008). UniPrime: a workflow-based platform for improved universal primer design. Nucleic Acids Res 36: e56. · DOI
  5. Bielawski JP, Yang ZH (2004). A maximum likelihood method for detecting functional divergence at individual codon sites, with application to gene family evolution. J Mol Evol 59: 121–132. · DOI
  6. Castoe TA, de Koning APJ, Kim HM, Gu WJ, Noonan BP, Naylor G et al. (2009). Evidence for an ancient adaptive episode of convergent molecular evolution. Proc Natl Acad Sci USA 106: 8986–8991. · DOI
  7. Christin PA, Weinreich DM, Besnard G (2010). Causes and evolutionary significance of genetic convergence. Trends Genet 26: 400–405. · DOI
  8. Corte-Real HBSM, Dixon DR, Holland PWH (1994). Intron-targeted PCR: a new approach to survey neutral DNA polymorphism in bivalve populations. Mar Biol 120: 407–413. · DOI
  9. Csorba G, Ujhelyi P, Thomas N (2003). Horseshoe bats of the world (Chiroptera: Rhinolophidae). Alana Books: Shropshire, UK.
  10. Delmaghani S, del Castillo FJ, Michel V, Leibovici M, Aghaie A, Ron U et al. (2006). Mutations in the gene encoding pejvakin, a newly identified protein of the afferent auditory pathway, cause DFNB59 auditory neuropathy. Nat Genet 38: 770–778. · DOI
  11. Dror AA, Avraham KB (2010). Hearing impairment: a panoply of genes and functions. Neuron 68: 293–308. · DOI
  12. Fenton MB, Bell GP (1981). Recognition of species of insectivorous bats by their echolocation calls. J Mammal 62: 233–243. · DOI
  13. Huber KT, Langton M, Penny D, Moulton V, Hendy M (2002). Spectronet: a package for computing spectra and median networks. Appl Bioinformatics 1: 159–161.
  14. Jones G, Teeling EC (2006). The evolution of echolocation in bats. Trends Ecol Evol 21: 149–156. · DOI
  15. Keresztes G, Mutai H, Heller S (2003). TMC and EVER genes belong to a larger novel family, the TMC gene family encoding transmembrane proteins. BMC Genomics 4. · DOI
  16. Khan FAA, Solari S, Swier VJ, Larsen PA, Abdullah MT, Baker RJ (2010). Systematics of Malaysian woolly bats (Vespertilionidae: Kerivoula) inferred from mitochondrial, nuclear, karyotypic, and morphological data. J Mammal 91: 1058–1072. · DOI
  17. Kitajiri SI, McNamara R, Makishima T, Husnain T, Zafar AU, Kittles RA et al. (2007). Identities, frequencies and origins of TMC1 mutations causing DFNB7/B11 deafness in Pakistan. Clin Genet 72: 546–550. · DOI
  18. Kossl M, Foeller E, Drexl M, Vater M, Mora E, Coro F et al. (2003). Postnatal development of cochlear function in the mustached bat, Pteronotus parnellii. J Neurophysiol 90: 2261–2273. · DOI
  19. Kurima K, Peters LM, Yang YD, Riazuddin S, Ahmed ZM, Naz S et al. (2002). Dominant and recessive deafness caused by mutations of a novel gene, TMC1, required for cochlear hair-cell function. Nat Genet 30: 277–284. · DOI
  20. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H et al. (2007). Clustal W and Clustal X version 2.0. Bioinformatics 23: 2947–2948. · DOI
  21. Li G, Wang JH, Rossiter SJ, Jones G, Cotton JA, Zhang SY (2008). The hearing gene Prestin reunites echolocating bats. Proc Natl Acad Sci USA 105: 13959–13964. · DOI
  22. Li Y, Liu Z, Shi P, Zhang JZ (2010). The hearing gene Prestin unites echolocating bats and whales. Curr Biol 20: R55–R56. · DOI
  23. Liu Y, Cotton JA, Shen B, Han XQ, Rossiter SJ, Zhang SY (2010a). Convergent sequence evolution between echolocating bats and dolphins. Curr Biol 20: R53–R54. · DOI
  24. Liu Y, Rossiter SJ, Han X, Cotton JA, Zhang S (2010b). Cetaceans on a molecular fast track to ultrasonic hearing. Curr Biol 20: 1834–1839. · DOI
  25. Marcotti W, Erven A, Johnson SL, Steel KP, Kros CJ (2006). Tmc1 is necessary for normal functional maturation and survival of inner and outer hair cells in the mouse cochlea. J Physiol 574: 677–698. · DOI
  26. McGowen MR, Spaulding M, Gatesy J (2009). Divergence date estimation and a comprehensive molecular tree of extant cetaceans. Mol Phylogenet Evol 53: 891–906. · DOI
  27. Miller-Butterworth CM, Murphy WJ, O’Brien SJ, Jacobs DS, Springer MS, Teeling EC (2007). A family matter: conclusive resolution of the taxonomic position of the long-fingered bats, Miniopterus. Mol Biol Evol 24: 1553–1561. · DOI
  28. Morris A, Bowmaker JK, Hunt DM (1993). The molecular-basis of a spectral shift in the rhodopsins of 2 species of squid from different photic environments. Proc R Soc Biol Sci B 254: 233–240. · DOI
  29. Murphy WJ, Pringle TH, Crider TA, Springer MS, Miller W (2007). Using genomic data to unravel the root of the placental mammal phylogeny. Genome Res 17: 413–421. · DOI
  30. Nevo E (1979). Adaptive convergence and divergence of subterranean mammals. Annu Rev Ecol Syst 10: 269–308. · DOI
  31. Nishihara H, Hasegawa M, Okada N (2006). Pegasoferae, an unexpected mammalian clade revealed by tracking ancient retroposon insertions. Proc Natl Acad Sci USA 103: 9929–9934. · DOI
  32. Packard A (1972). Cephalopods and fish - limits of convergence. Biol Rev Camb Philos Soc 47: 241. · DOI
  33. Roelants K, Fry BG, Norman JA, Clynen E, Schoofs L, Bossuyt F (2010). Identical skin toxins by convergent molecular adaptation in frogs. Curr Biol 20: 125–130. · DOI
  34. Rokas A, Carroll SB (2008). Frequent and widespread parallel evolution of protein sequences. Mol Biol Evol 25: 1943–1953. · DOI
  35. Romero-Herrera AE, Lehmann H, Joysey KA, Friday AE (1978). On the evolution of myoglobin. Phil Trans R Soc Lond B 283: 61–163. · DOI
  36. Ronquist F, Huelsenbeck JP (2003). MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572–1574. · DOI
  37. Rossiter SJ, Zhang S, Liu Y (2011). Prestin and high-frequency hearing in mammals. Comm Int Biol 4: 236–239. · DOI
  38. Schmieder DA, Kingston T, Hashim R, Siemers BM (2010). Breaking the trade-off: rainforest bats maximize bandwidth and repetition rate of echolocation calls as they approach prey. Biol Lett 6: 604–609. · DOI
  39. Schultz J, Milpetz F, Bork P, Ponting CP (1998). SMART, a simple modular architecture research tool: identification of signaling domains. Proc Natl Acad Sci USA 95: 5857–5864. · DOI
  40. Schwander M, Sczaniecka A, Grillet N, Bailey JS, Avenarius M, Najmabadi H et al. (2007). A forward genetics screen in mice identifies recessive deafness traits and reveals that pejvakin is essential for outer hair cell function. J Neurosci 27: 2163–2175. · DOI
  41. Shimodaira H (2002). An approximately unbiased test of phylogenetic tree selection. Syst Biol 51: 492–508. · DOI · Paper page
  42. Stamatakis A (2006). RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688–2690. · DOI · Paper page
  43. Stewart CB, Schilling JW, Wilson AC (1987). Adaptive evolution in the stomach lysozymes of foregut fermenters. Nature 330: 401–404. · DOI
  44. Teeling EC, Madsen O, Van den Bussche RA, de Jong WW, Stanhope MJ, Springer MS (2002). Microbat paraphyly and the convergent evolution of a key innovation in Old World rhinolophoid microbats. Proc Natl Acad Sci USA 99: 1431–1436. · DOI
  45. Vater M, Kossl M (2004). Introduction: The ears of whales and bats. In: Thomas JA, Moss CF, Vater M (eds). Echolocation in Bats and Dolphins. The University of Chicago Press: Chicago and London. pp 89–98.
  46. Yang ZH (2007). PAML 4: phylogenetic analysis by maximum likelihood. Mol Biol Evol 24: 1586–1591. · DOI · Paper page
  47. Yeager M, Kumar S, Hughes AL (1997). Sequence convergence in the peptide-binding region of primate and rodent MBC class Ib molecules. Mol Biol Evol 14: 1035–1041. · DOI
  48. Zhang JZ, Nielsen R, Yang ZH (2005). Evaluation of an improved branch-site likelihood method for detecting positive selection at the molecular level. Mol Biol Evol 22: 2472–2479. · DOI · Paper page
  49. Zheng J, Shen WX, He DZZ, Kevin BL, Madison LD, Dallos P (2000). Prestin is the motor protein of cochlear outer hair cells. Nature 405: 149–155. · DOI

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Metadata

Authors
Davies, K. T. J., Cotton, J. A., Kirwan, J. D., Teeling, E. C., & Rossiter, S. J.
Venue
Heredity
Publisher
Springer Science and Business Media LLC
Published
2011-12-14
Volume
108
Issue
5
Pages
480-489
ISSN
  • 0018-067X
  • 1365-2540
DOI
10.1038/hdy.2011.119
Cited by
105
References
1
Language
en
Licence
www.springer.com/tdm (tdm)

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