The crowns have eyes: multiple opsins found in the eyes of the crown-of-thorns starfish Acanthaster planci
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Land MF, Nilsson D-E. Light and vision. In: Animal Eyes. New York: Oxford University Press; 2012. p. 23–45.
Strathmann M, Simon MI. G protein diversity: a distinct class of alpha subunits is present in vertebrates and invertebrates. Proc Natl Acad Sci U S A. 1990;87:9113–7.
Hildebrandt JD. Role of subunit diversity in signaling by heterotrimeric G proteins. Biochem Pharmacol. 1997;54:325–39.
Koyanagi M, Takano K, Tsukamoto H, Ohtsu K, Tokunaga F, Terakita A. Jellyfish vision starts with cAMP signaling mediated by opsin-G(s) cascade. Proc Natl Acad Sci U S A. 2008;105:15576–80.
Mason B, Schmale M, Gibbs P, Miller MW, Wang Q, Levay K, et al. Evidence for multiple phototransduction pathways in a reef-building coral. PLoS One. 2012;7:e50371.
Porter ML, Blasic JR, Bok MJ, Cameron EG, Pringle T, Cronin TW, et al. Shedding new light on opsin evolution. Proc Biol Sci. 2012;279:3–14.
D’Aniello S, Delroisse J, Valero-Gracia A, Lowe EK, Byrne M, Cannon JT, et al. Opsin evolution in the Ambulacraria. Mar Genomics. 2015;24(Pt 2):177–83.
Ramirez MD, Pairett AN, Pankey MS, Serb JM, Speiser DI, Swafford AJ, et al. The Last Common Ancestor of Most Bilaterian Animals Possessed at Least Nine Opsins. Genome Biol Evol. 2016;8:3640–52.
Suga H, Schmid V, Gehring WJ. Evolution and functional diversity of jellyfish opsins. Curr Biol. 2008;18:51–5.
Shen WL, Kwon Y, Adegbola AA, Luo J, Chess A, Montell C. Function of rhodopsin in temperature discrimination in Drosophila. Science. 2011;331:1333–6.
Leung NY, Montell C. Unconventional Roles of Opsins. Annu Rev Cell Dev Biol. 2017; Available from. https://doi.org/10.1146/annurev-cellbio-100616-060432 .
Aizenberg J, Tkachenko A, Weiner S, Addadi L, Hendler G. Calcitic microlenses as part of the photoreceptor system in brittlestars. Nature. 2001;412:819–22.
Sumner-Rooney L, Rahman IA, Sigwart JD, Ullrich-Lüter E. Whole-body photoreceptor networks are independent of “lenses” in brittle stars. Proc Biol Sci. 2018;285. Available from. https://doi.org/10.1098/rspb.2017.2590 .
Ullrich-Lüter EM, Dupont S, Arboleda E, Hausen H, Arnone MI. Unique system of photoreceptors in sea urchin tube feet. Proc Natl Acad Sci U S A. 2011;108:8367–72.
Ullrich-Lüter EM, D’Aniello S, Arnone MI. C-opsin expressing photoreceptors in echinoderms. Integr Comp Biol. 2013;53:27–38.
Raible F, Tessmar-Raible K, Arboleda E, Kaller T, Bork P, Arendt D, et al. Opsins and clusters of sensory G-protein-coupled receptors in the sea urchin genome. Dev Biol. 2006;300:461–75.
Blevins E, Johnsen S. Spatial vision in the echinoid genus Echinometra. J Exp Biol. 2004;207:4249–53.
Yerramilli D, Johnsen S. Spatial vision in the purple sea urchin Strongylocentrotus purpuratus (Echinoidea). J Exp Biol. 2009;213:249–55.
Delroisse J, Ullrich-Lüter E, Ortega-Martinez O, Dupont S, Arnone M-I, Mallefet J, et al. High opsin diversity in a non-visual infaunal brittle star. BMC Genomics. 2014;15:1035.
Yoshida M, Ohtsuki H. The phototactic behavior of the starfish, Asterias amurensis Lutken. Biol Bull. Marine Biological Laboratory. 1968;134:516–32.
Yoshida M. Extraocular Photoreception. Comparative Physiology and Evolution of Vision in Invertebrates. Berlin, Heidelberg: Springer; 1979. p. 581–640.
Yoshida M, Takasu N, Tamotsu S. Photoreception in Echinoderms. In: Photoreception and Vision in Invertebrates. Boston: Springer; 1984. p. 743–71.
Nilsson D-E. Eyes as Optical Alarm Systems in Fan Worms and Ark Clams. Philos Trans R Soc Lond B Biol Sci. 1994;346:195–212.
Bok MJ, Capa M, Nilsson D-E. Here, There and Everywhere: The Radiolar Eyes of Fan Worms (Annelida, Sabellidae). Integr Comp Biol. 2016;56:784–95.
Garm A, Nilsson D-E. Visual navigation in starfish: first evidence for the use of vision and eyes in starfish. Proc Biol Sci. 2014;281:20133011.
Petie R, Garm A, Hall MR. Crown-of-thorns starfish have true image forming vision. Front Zool. 2016;13:41.
Petie R, Hall MR, Hyldahl M, Garm A. Visual orientation by the crown-of-thorns starfish (Acanthaster planci). Coral Reefs. 2016;35:1139–50.
Vogler C, Benzie J, Lessios H, Barber P, Wörheide G. A threat to coral reefs multiplied? Four species of crown-of-thorns starfish. Biol Lett. 2008;4:696–9.
Haszprunar G, Vogler C, Wörheide G. Persistent Gaps of Knowledge for Naming and Distinguishing Multiple Species of Crown-of-Thorns-Seastar in the Acanthaster planci Species Complex. Diversity. Multidisciplinary Digital Publishing Institute. 2017;9:22.
Hall MR, Kocot KM, Baughman KW, Fernandez-Valverde SL, Gauthier MEA, Hatleberg WL, et al. The crown-of-thorns starfish genome as a guide for biocontrol of this coral reef pest. Nature. 2017;544:231–4.
Arendt D. Evolution of eyes and photoreceptor cell types. Int J Dev Biol. ijdb.ehu.es. 2003;47:563–71.
Thomas PD, Campbell MJ, Kejariwal A, Mi H, Karlak B, Daverman R, et al. PANTHER: a library of protein families and subfamilies indexed by function. Genome Res. 2003;13:2129–41.
Ronquist F, Teslenko M, van der Mark P, Ayres DL, Darling A, Höhna S, et al. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst Biol. academic.oup.com. 2012;61:539–42.
Minh BQ, Nguyen MAT, von Haeseler A. Ultrafast approximation for phylogenetic bootstrap. Mol Biol Evol. 2013;30:1188–95.
Patro R, Duggal G, Love MI, Irizarry RA, Kingsford C. Salmon provides fast and bias-aware quantification of transcript expression. Nat Methods. 2017;14:417–9.
Love MI, Huber W, Anders S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 2014;15:550.
Karnik SS, Khorana HG. Assembly of functional rhodopsin requires a disulfide bond between cysteine residues 110 and 187. J Biol Chem. 1990;265:17520–4.
Hering L, Mayer G. Analysis of the opsin repertoire in the tardigrade Hypsibius dujardini provides insights into the evolution of opsin genes in panarthropoda. Genome Biol Evol. 2014;6:2380–91.
Mah C, Foltz D. Molecular phylogeny of the Valvatacea (Asteroidea: Echinodermata). Zool J Linn Soc. Blackwell Publishing Ltd. 2011;161:769–88.
Kos M, Bulog B, Szél A, Röhlich P. Immunocytochemical demonstration of visual pigments in the degenerate retinal and pineal photoreceptors of the blind cave salamander (Proteus anguinus). Cell Tissue Res. 2001;303:15–25.
Plachetzki DC, Serb JM, Oakley TH. New insights into the evolutionary history of photoreceptor cells. Trends Ecol Evol. 2005;20:465–7.
Arendt D, Tessmar-Raible K, Snyman H, Dorresteijn AW, Wittbrodt J. Ciliary photoreceptors with a vertebrate-type opsin in an invertebrate brain. Science. 2004;306:869–71.
Aken BL, Achuthan P, Akanni W, Amode MR, Bernsdorff F, Bhai J, et al. Ensembl 2017. Nucleic Acids Res. 2017;45:D635–42.
Cameron RA, Samanta M, Yuan A, He D, Davidson E. SpBase: the sea urchin genome database and web site. Nucleic Acids Res. 2009;37:D750–4.
Lesser MP, Carleton KL, Böttger SA, Barry TM, Walker CW. Sea urchin tube feet are photosensory organs that express a rhabdomeric-like opsin and PAX6. Proc Biol Sci. 2011;278:3371–9.
Zhao C, Ji N, Tian X, Feng W, Sun P, Wei J, et al. Opsin4, Opsin5, and Pax6 significantly increase their expression in recently settled juveniles of the sea urchinStrongylocentrotus intermedius(Echinodermata: Echinoidea). Invertebr Reprod Dev. 2015;59:119–23.
Delroisse J, Lanterbecq D, Eeckhaut I, Mallefet J, Flammang P. Opsin detection in the sea urchin Paracentrotus lividus and the sea star Asterias rubens. Cah Biol Mar. 2013;54:721–7.
Hao W, Fong HK. The endogenous chromophore of retinal G protein-coupled receptor opsin from the pigment epithelium. J Biol Chem. 1999;274:6085–90.
Nagata T, Koyanagi M, Tsukamoto H, Terakita A. Identification and characterization of a protostome homologue of peropsin from a jumping spider. J Comp Physiol A Neuroethol Sens Neural Behav Physiol. Springer. 2010;196:51–9.
Chen P, Hao W, Rife L, Wang XP, Shen D, Chen J, et al. A photic visual cycle of rhodopsin regeneration is dependent on Rgr. Nat Genet. 2001;28:256–60.
Koyanagi M, Terakita A, Kubokawa K, Shichida Y. Amphioxus homologs of Go-coupled rhodopsin and peropsin having 11-cis- and all-trans-retinals as their chromophores. FEBS Lett. 2002;531:525–8.
Bailey MJ, Cassone VM. Opsin photoisomerases in the chick retina and pineal gland: characterization, localization, and circadian regulation. Invest Ophthalmol Vis Sci. 2004;45:769–75.
Kojima D, Terakita A, Ishikawa T, Tsukahara Y, Maeda A, Shichida YA. Novel Go-mediated Phototransduction Cascade in Scallop Visual Cells. J Biol Chem. 1997;272:22979–82.
Arenas O, Osorno T, Malagón G, Pulido C, Gomez MDP, Nasi E. Molecular and functional identification of a novel photopigment in ciliary photoreceptors. J Gen Physiol. 2018; Available from. https://doi.org/10.1085/jgp.201711938 .
Gühmann M, Jia H, Randel N, Verasztó C, Bezares-Calderón LA, Michiels NK, et al. Spectral Tuning of Phototaxis by a Go-Opsin in the Rhabdomeric Eyes of Platynereis. Curr Biol. 2015;25:2265–71.
Tsukamoto H, Terakita A, Shichida Y. A rhodopsin exhibiting binding ability to agonist all-trans-retinal. Proc Natl Acad Sci U S A. 2005;102:6303–8.
Bolger AM, Lohse M, Usadel B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics. 2014;30:2114–20.
Li B, Ruotti V, Stewart RM, Thomson JA, Dewey CN. RNA-Seq gene expression estimation with read mapping uncertainty. Bioinformatics. 2010;26:493–500.
Smith-Unna RD, Boursnell C, Patro R, Hibberd JM, Kelly S. TransRate: reference free quality assessment of de-novo transcriptome assemblies [Internet]. 2015. Available from: https://doi.org/10.1101/021626 .
Ooka S, Katow T, Yaguchi S, Yaguchi J, Katow H. Spatiotemporal expression pattern of an encephalopsin orthologue of the sea urchin Hemicentrotus pulcherrimus during early development, and its potential role in larval vertical migration. Dev Growth Differ. 2010;52:195–207.
Cannon JT, Kocot KM, Waits DS, Weese DA, Swalla BJ, Santos SR, et al. Phylogenomic resolution of the hemichordate and echinoderm clade. Curr Biol. 2014;24:2827–32.
Mashanov VS, Zueva OR, García-Arrarás JE. Transcriptomic changes during regeneration of the central nervous system in an echinoderm. BMC Genomics. 2014;15:357.
Elphick MR, Semmens DC, Blowes LM, Levine J, Lowe CJ, Arnone MI, et al. Reconstructing SALMFamide Neuropeptide Precursor Evolution in the Phylum Echinodermata: Ophiuroid and Crinoid Sequence Data Provide New Insights. Front Endocrinol. 2015;6:2.
Freeman RM Jr, Wu M, Cordonnier-Pratt M-M, Pratt LH, Gruber CE, Smith M, et al. cDNA sequences for transcription factors and signaling proteins of the hemichordate Saccoglossus kowalevskii: efficacy of the expressed sequence tag (EST) approach for evolutionary and developmental studies of a new organism. Biol Bull. 2008;214:284–302.
Hall MD, Hoon MA, Ryba NJ, Pottinger JD, Keen JN, Saibil HR, et al. Molecular cloning and primary structure of squid (Loligo forbesi) rhodopsin, a phospholipase C-directed G-protein-linked receptor. Biochem J. 1991;274(Pt 1):35–40.
Hara-Nishimura I, Kondo M, Nishimura M, Hara R, Hara T. Cloning and nucleotide sequence of cDNA for rhodopsin of the squid Todarodes pacificus. FEBS Lett. 1993;317:5–11.
Carulli JP, Hartl DL. Variable rates of evolution among Drosophila opsin genes. Genetics. 1992;132:193–204.
Chou WH, Hall KJ, Wilson DB, Wideman CL, Townson SM, Chadwell LV, et al. Identification of a novel Drosophila opsin reveals specific patterning of the R7 and R8 photoreceptor cells. Neuron. 1996;17:1101–15.
Okano T, Kojima D, Fukada Y, Shichida Y, Yoshizawa T. Primary structures of chicken cone visual pigments: vertebrate rhodopsins have evolved out of cone visual pigments. Proc Natl Acad Sci U S A. 1992;89:5932–6.
Sun H, Gilbert DJ, Copeland NG, Jenkins NA, Nathans J. Peropsin, a novel visual pigment-like protein located in the apical microvilli of the retinal pigment epithelium. Proc Natl Acad Sci U S A. 1997;94:9893–8.
Tao L, Shen D, Pandey S, Hao W, Rich KA, Fong HK. Structure and developmental expression of the mouse RGR opsin gene. Mol Vis. 1998;4:25.
Provencio I, Rodriguez IR, Jiang G, Hayes WP, Moreira EF, Rollag MD. A novel human opsin in the inner retina. J Neurosci Soc Neuroscience. 2000;20:600–5.
Kasper G, Taudien S, Staub E, Mennerich D, Rieder M, Hinzmann B, et al. Different structural organization of the encephalopsin gene in man and mouse. Gene. 2002;295:27–32.
Sakami S, Kolesnikov AV, Kefalov VJ, Palczewski K. P23H opsin knock-in mice reveal a novel step in retinal rod disc morphogenesis. Hum Mol Genet. 2014;23:1723–41.
Arendt D, Tessmar K, de Campos-Baptista M-IM, Dorresteijn A, Wittbrodt J. Development of pigment-cup eyes in the polychaete Platynereis dumerilii and evolutionary conservation of larval eyes in Bilateria. Development. 2002;129:1143–54.
NCBI Resource Coordinators. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. 2016;44:D7–19.
Katoh K. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res. 2002;30:3059–66.
Katoh K, Standley DM. MAFFT: Iterative Refinement and Additional Methods. Methods in Molecular Biology. 2013:131–46.
Thompson JD, Linard B, Lecompte O, Poch O. A comprehensive benchmark study of multiple sequence alignment methods: current challenges and future perspectives. PLoS One. 2011;6:e18093.
Capella-Gutiérrez S, Silla-Martínez JM, Gabaldón T. trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics. 2009;25:1972–3.
Nguyen L-T, Schmidt HA, von Haeseler A, Minh BQ. IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Mol Biol Evol. 2015;32:268–74.
Anisimova M, Gil M, Dufayard J-F, Dessimoz C, Gascuel O. Survey of branch support methods demonstrates accuracy, power, and robustness of fast likelihood-based approximation schemes. Syst Biol. 2011;60:685–99.
Morariu VI, Srinivasan BV, Raykar VC, Duraiswami R, Davis LS. Automatic online tuning for fast Gaussian summation. In: Koller D, Schuurmans D, Bengio Y, Bottou L, editors. Advances in Neural Information Processing Systems 21: Curran Associates, Inc; 2009. p. 1113–20.
Cai K, Klein-Seetharaman J, Hwa J, Hubbell WL, Khorana HG. Structure and function in rhodopsin: effects of disulfide cross-links in the cytoplasmic face of rhodopsin on transducin activation and phosphorylation by rhodopsin kinase. Biochemistry. 1999;38:12893–8.
Haskell-Luevano C, Cone RD, Monck EK, Wan YP. Structure activity studies of the melanocortin-4 receptor by in vitro mutagenesis: identification of agouti-related protein (AGRP), melanocortin agonist and synthetic peptide antagonist interaction determinants. Biochemistry. 2001;40:6164–79.