Thesis
A base molecular das adaptações visuais nos genes das opsinas de anableps Anableps e Phreatobius cisternarum através da análise de transcriptoma
Mariluz, B.R.
Record Number:
5109
Year:
2019
Short Title:
The molecular basis of visual adaptations in the Anableps and Phreatobius cisternarum opsin genes through transcriptome analysis
Abstract:
Mariluz, B.R.Z. “The molecular basis of the visual adaptations in the opsin genes from
Anableps anableps and Phreatobius cisternarum through transcriptome analysis”. 2019.
123f. Tese de doutorado - Programa de Pós-graduação em Neurociências e Biologia Celular
da Universidade Federal do Pará, Belém, PA, Brasil.
Although vertebrate eyes share the same general organization, many species have
developed specializations that improve their visual perception of the environment. These
specializations are often reflected in a variety of visual adaptations that involve changes in
visual sensitivity, which in turn can be modulated by the variation on the photoreceptors
number, by altering the visual pigments or by combining both mechanisms. In the case of
adaptive changes in the pigments, these may occur due to structural differences in the pattern
of expression and the repertoire amount of the opsin genes family. However, there is no much
information regarding adaptive changes on visual pigments over different luminosity on
aquatic environments. This research aims to evaluate the molecular basis of the visual
adaptations in the opsin genes from Anableps anableps and Phreatobius cisternarum, species
present in environments with different light conditions, the first one from a surface
environment and the second one from an underground habitat, through transcriptome analysis.
This investigation comprises two chapters. The first chapter comprises the studies of the
Anableps anableps specie. We combined the analysis of RNA-Seq and in situ hybridization of
the eye tissue of this specie aiming to understand them visual adaptations to the aerial-aquatic
environment. RNA-Seq data from the eye exhibited a repertoire of 20 non-visual opsin genes,
which reflects the environmental heterogeneity these species lives. Likewise, comparative
analyzes in protein coding sequences of the opsins allowed the identification of six opsins presenting the typical amino acid motifs of C-type and nine of Group 4, conserved among
themselves. In situ hybridization studies on the retina showed asymmetric expression of these
non-visual opsins at different stages, as well as during the ocular development. The second
chapter presents the studies of the Phreatobius cisternarum specie. We combine histological,
molecular and RNA-Seq analyzes to understand the visual and sensorial adaptations of P.
cisternarum to the phreatic environment. RNA-Seq data from P. cisternarum head revealed a
repertoire of eleven opsin genes, three visual opsins and eight non-visual opsins. Two visual
opsins, rh1 and lws, presented amino acid substitutions that potentially contributed to the red
and blue shift, respectively. Our histological analysis showed the presence of a rudimentary retina, while the RNA-Seq analysis identified the expression of 38 genes related to the lens
fiber cells and 51 genes related to the retinal pigmented epithelium (RPE), indicating that the
reduced eyes of P. cisternarum retained some lens structures. The extra-retinal expression of
opn4m3 is possibly associated with the peripheral clock regulation. Furthermore, the presence
of potential opsin pseudogenes would be regulated by a small retina exposed to a low-light
environment. The chapters introduce and provide an overview of the investigation on opsins
amino acid substitutions, changes on expression patterns and opsin repertoire size (duplication
and pseudogenization), and how these could contribute to the shift in spectral sensitivity and
finally visual adaptation of A. anableps and P. cisternarum to their peculiar environment. The
present study provides fundamental evidence for the understanding of the adaptive molecular
basis in the opsin genes to subterranean and aerial-aquatic environments, in the species P.
cisternarum and A. anableps.
Keywords: Opsins. Amino acid substitutions. Expression pattern. Spectral sensitivity.
Transcriptome.
Times Cited:
8
Relevent Species:
Phreatobius cisternarum Goeldi 1905Phreatobius undescribed species Jaú [Muriel-Cunha 2008]Phreatobius sanguijuela Fernandez, Saucedo, Carvajal and Schaefer 2007Phreatobius dracunculus Shibatta, Muriel-Cunha and De Pinna 2007Phreatobius undescribed species Anapixi [Muriel-Cunha 2008]Phreatobius undescribed species Viruá [Muriel-Cunha 2008]Phreatobius undescribed species Tarumanzinho [Muriel-Cunha 2008]Phreatobius undescribed species Aripuana [Muriel-Cunha 2008]
Related Records:
Goeldi, E. (1905)
Nova zoologica aus der Amazonas-Region. Neue Wirbeltiere
Fuhrmann, O. (1905)Scleropages formosum und uber Phreatobius cisternarum
Fuhrmann, O. (1905)Scleropages formosum und uber Phreatobius cisterarum
Fuhrmann, O. (1905)Scleropages formosum und uber Phreatobius cisternarum
Fuhrmann, O. (1905)Scleropages formosum und uber Phreatobius cisternarum
Fuhrmann, O. (1905)Scleropages formosum und uber Phreatobius cisterarum
Fuhrmann, O. (1905)Scleropages formosum und uber Phreatobius cisterarum
Goeldi, E. (1905)Nova zoologica aus der Amazonas-Region. Neue Wirbeltiere
Fuhrmann, O. (1905)Scleropages formosum und uber Phreatobius cisternarum
Fuhrmann, O. (1905)Scleropages formosum und uber Phreatobius cisterarum
Eigenmann, C. H. (1918)The Pygidiidae, a family of South American catfishes
Eigenmann, C. H. (1918)The Pygidiidae, a family of South American catfishes
Eigenmann, C.H. (1919)Trogloglanis pattersoni, a new blind fish from San Antonio, Texas
Eigenmann, C.H. (1919)Trogloglanis pattersoni, a new blind fish from San Antonio, Texas
Reichel, M. (1927)Etude anatomique du Phreatobius cisternarum Goeldi, Silure aveugle du Bresil
Reichel, M. (1927)Etude anatomique du Phreatobius cisternarum Goeldi, Silure aveugle du Bresil
Reichel, M. (1927)Etude anatomique du Phreatobius cisternarum Goeldi, Silure aveugle du Bresil
Reichel, M. (1927)Etude anatomique du Phreatobius cisternarum Goeldi, Silure aveugle du Bresil
Myers, G. S. (1944)Two extraordinary new blind nematognath fishes from the Rio Negro, representing a new subfamily of Pygidiidae, with a rearrangement of the genera of the family
Myers, G. S. (1944)Two extraordinary new blind nematognath fishes from the Rio Negro, representing a new subfamily of Pygidiidae, with a rearrangement of the genera of the family
Gosline, W. A. (1945)Catalogo dos nematognathos de agua-doce da America do Sol e Central
Gosline, W. A. (1945)Catalogo dos nematognathos de agua-doce da America do Sol e Central
Fowler, H.W. (1954)Os peixes de agua doce do Brasil. Vol. 2
Fowler, H.W. (1954)Os peixes de agua doce do Brasil. Vol. 2
DeCarvalho, A.L. (1967)Novas dados para o conhecimento de Phreatobius cisternarum Goeldi (Pisces, Pygidiidae, Phreatobiinae)
DeCarvalho, A.L. (1967)Novas dados para o conhecimento de Phreatobius cisternarum Goeldi (Pisces, Pygidiidae, Phreatobiinae)
DeCarvalho, A.L. (1967)Novas dados para o conhecimento de Phreatobius cisternarum Goeldi (Pisces, Pygidiidae, Phreatobiinae)
DeCarvalho, A.L. (1967)Novas dados para o conhecimento de Phreatobius cisternarum Goeldi (Pisces, Pygidiidae, Phreatobiinae)
Chardon, M. (1968)Anatomie comparee de l'appareil de Weber et des structures connexes chez les Siluriformes
Chardon, M. (1968)Anatomie comparee de l'appareil de Weber et des structures connexes chez les Siluriformes
Thines, G. and Proudlove, G.S. (1986)Pisces
Buckup, P. A. (1988)The genus Heptapterus (Teleostei, Pimelodidae) in southern Brazil and Uruguay, with the description of a new species
Buckup, P. A. (1988)The genus Heptapterus (Teleostei, Pimelodidae) in southern Brazil and Uruguay, with the description of a new species
Henderson, P. A. (1990)Fish of the Amazonian Igapo: stability and conservation in a high diversity-low biomass system
Henderson, P. A. (1990)Fish of the Amazonian Igapo: stability and conservation in a high diversity-low biomass system
Lundberg, J.G., Bornbusch, A.H. and Mago-Leccia, F. (1991)Gladioglanis conquistador n.sp. from Ecuador with diagnoses of the subfamilies Rhamdiinae Bleeker and Pseudopimelodinae n. subf. (Siluriformes: Pimelodidae)
Lundberg, J.G., Bornbusch, A.H. and Mago-Leccia, F. (1991)Gladioglanis conquistador n.sp. from Ecuador with diagnoses of the subfamilies Rhamdiinae Bleeker and Pseudopimelodinae n. subf. (Siluriformes: Pimelodidae)
Trajano, E. (1997)Food and reproduction of Trichomycterus itacarambiensis, a cave catfish from south-eastern Brazil
de Pinna, M.C.C. (1998)Phylogenetic relationships of Neotropical Siluriformes (Teleostei: Ostariophysi): Historical overview and synthesis of hypotheses
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Mariluz, B.R. (2019)A base molecular das adaptações visuais nos genes das opsinas de anableps Anableps e Phreatobius cisternarum através da análise de transcriptoma
Liu, A. Schneider, P. and Taylor,J. (2019)Opsins in the dark. Characterising light sensitive genes in the Brazilian eyeless cavefish Phreatobius cisternarum
Mariluz, B.R. (2019)A base molecular das adaptações visuais nos genes das opsinas de anableps Anableps e Phreatobius cisternarum através da análise de transcriptoma
Liu, A. Schneider, P. and Taylor,J. (2019)Opsins in the dark. Characterising light sensitive genes in the Brazilian eyeless cavefish Phreatobius cisternarum
Liu, A. Schneider, P. and Taylor,J. (2019)Opsins in the dark. Characterising light sensitive genes in the Brazilian eyeless cavefish Phreatobius cisternarum
Liu, A. Schneider, P. and Taylor,J. (2019)Opsins in the dark. Characterising light sensitive genes in the Brazilian eyeless cavefish Phreatobius cisternarum
Mariluz, B.R. (2019)A base molecular das adaptações visuais nos genes das opsinas de anableps Anableps e Phreatobius cisternarum através da análise de transcriptoma
Mariluz, B.R. (2019)A base molecular das adaptações visuais nos genes das opsinas de anableps Anableps e Phreatobius cisternarum através da análise de transcriptoma
Mariluz, B.R. (2019)A base molecular das adaptações visuais nos genes das opsinas de anableps Anableps e Phreatobius cisternarum através da análise de transcriptoma
Liu, A. Schneider, P. and Taylor,J. (2019)Opsins in the dark. Characterising light sensitive genes in the Brazilian eyeless cavefish Phreatobius cisternarum
Mariluz, B.R. (2019)A base molecular das adaptações visuais nos genes das opsinas de anableps Anableps e Phreatobius cisternarum através da análise de transcriptoma
Mariluz, B.R. (2019)A base molecular das adaptações visuais nos genes das opsinas de anableps Anableps e Phreatobius cisternarum através da análise de transcriptoma
Mariluz, B.R. (2019)A base molecular das adaptações visuais nos genes das opsinas de anableps Anableps e Phreatobius cisternarum através da análise de transcriptoma
Perez, L.N., Mariluz, B.R., Lorena, J., Liu, A., Sousa, M.P., Martins, R.A.P., Taylor, J.S. and Schneider, P.N. (2021)The subterranean catfish Phreatobius cisternarum provides insights into visual adaptations to the phreatic environment
Perez, L.N., Mariluz, B.R., Lorena, J., Liu, A., Sousa, M.P., Martins, R.A.P., Taylor, J.S. and Schneider, P.N. (2021)The subterranean catfish Phreatobius cisternarum provides insights into visual adaptations to the phreatic environment
Perez, L.N., Mariluz, B.R., Lorena, J., Liu, A., Sousa, M.P., Martins, R.A.P., Taylor, J.S. and Schneider, P.N. (2021)The subterranean catfish Phreatobius cisternarum provides insights into visual adaptations to the phreatic environment
Perez, L.N., Mariluz, B.R., Lorena, J., Liu, A., Sousa, M.P., Martins, R.A.P., Taylor, J.S. and Schneider, P.N. (2021)The subterranean catfish Phreatobius cisternarum provides insights into visual adaptations to the phreatic environment
Perez, L.N., Mariluz, B.R., Lorena, J., Liu, A., Sousa, M.P., Martins, R.A.P., Taylor, J.S. and Schneider, P.N. (2021)The subterranean catfish Phreatobius cisternarum provides insights into visual adaptations to the phreatic environment
Perez, L.N., Mariluz, B.R., Lorena, J., Liu, A., Sousa, M.P., Martins, R.A.P., Taylor, J.S. and Schneider, P.N. (2021)The subterranean catfish Phreatobius cisternarum provides insights into visual adaptations to the phreatic environment
Perez, L.N., Mariluz, B.R., Lorena, J., Liu, A., Sousa, M.P., Martins, R.A.P., Taylor, J.S. and Schneider, P.N. (2021)The subterranean catfish Phreatobius cisternarum provides insights into visual adaptations to the phreatic environment
Perez, L.N., Mariluz, B.R., Lorena, J., Liu, A., Sousa, M.P., Martins, R.A.P., Taylor, J.S. and Schneider, P.N. (2021)The subterranean catfish Phreatobius cisternarum provides insights into visual adaptations to the phreatic environment