The Cryptochrome/Photolyase Family in aquatic organisms

Oliveri, Paola; Fortunato, Antonio Emidio; Petrone, Libero; Ishikawa-Fujiwara, Tomoko; Kobayashi, Yuri; Todo, Tomoki; Antonova, Olga; Arboleda, Enrique; Zantke, Juliane; Tessmar-Raible, Kristin; Falciatore, Angela

doi:10.1016/j.margen.2014.02.001

Cited by 82 publications

(109 citation statements)

References 108 publications

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“…It is likely that the common ancestor of fungi had genes for both, a CPD-photolyase and a cry-DASH, the latter most likely originated from gene duplication of a CPD-photolyase. This conclusion is fully consistent with recent phylogenetic studies of the CPF, indicating the presence of cry-DASH already in the last common ancestor of all eukaryotes (47). During further evolution in the mucoromycotina lineage, class I CPD-photolyases got lost except in the progenitor of Umbelopsis ramanniana, which is an early diverging lineage.…”

Section: Discussionsupporting

confidence: 91%

Fungal cryptochrome with DNA repair activity reveals an early stage in cryptochrome evolution

Tagua

Pausch

Eckel

et al. 2015

Proc. Natl. Acad. Sci. U.S.A.

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DASH (Drosophila, Arabidopsis, Synechocystis, Human)-type cryp- tochromes (cry-DASH) belong to a family of flavoproteins acting as repair enzymes for UV-B–induced DNA lesions (photolyases) or as UV-A/blue light photoreceptors (cryptochromes). They are present in plants, bacteria, various vertebrates, and fungi and were originally considered as sensory photoreceptors because of their incapability to repair cyclobutane pyrimidine dimer (CPD) lesions in duplex DNA. However, cry-DASH can repair CPDs in single-stranded DNA, but their role in DNA repair in vivo remains to be clarified. The genome of the fungus Phycomyces blakesleeanus contains a single gene for a protein of the cryptochrome/photolyase family (CPF) encoding a cry-DASH, cryA, despite its ability to photoreactivate. Here, we show that cryA expression is induced by blue light in a Mad complex-dependent man- ner. Moreover, we demonstrate that CryA is capable of binding flavin (FAD) and methenyltetrahydrofolate (MTHF), fully complements the Escherichia coli photolyase mutant and repairs in vitro CPD lesions in single-stranded and double-stranded DNA with the same efficiency. These results support a role for Phycomyces cry-DASH as a photolyase and suggest a similar role for cry-DASH in mucoromycotina fung

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Section: Discussionsupporting

confidence: 91%

Fungal cryptochrome with DNA repair activity reveals an early stage in cryptochrome evolution

Tagua

Pausch

Eckel

et al. 2015

Proc. Natl. Acad. Sci. U.S.A.

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“…Protein alignment, preliminary phylogenies, and estimation of the best amino acid model given the data (LG +I+G+F; Akaike criterion) was performed as described (Oliveri et al, 2014). Genealogical relationships among protein sequences were inferred using MrBayes 3.2.3 (Ronquist et al, 2012) on the CIPRES Science Gateway (Miller et al, 2010).…”

Section: Phylogenetic Analysis Of the Phytochrome Family Predictionmentioning

confidence: 99%

Diatom Phytochromes Reveal the Existence of Far-Red-Light-Based Sensing in the Ocean

et al. 2016

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The absorption of visible light in aquatic environments has led to the common assumption that aquatic organisms sense and adapt to penetrative blue/green light wavelengths but show little or no response to the more attenuated red/far-red wavelengths. Here, we show that two marine diatom species, Phaeodactylum tricornutum and Thalassiosira pseudonana, possess a bona fide red/far-red light sensing phytochrome (DPH) that uses biliverdin as a chromophore and displays accentuated red-shifted absorbance peaks compared with other characterized plant and algal phytochromes. Exposure to both red and far-red light causes changes in gene expression in P. tricornutum, and the responses to far-red light disappear in DPH knockout cells, demonstrating that P. tricornutum DPH mediates far-red light signaling. The identification of DPH genes in diverse diatom species widely distributed along the water column further emphasizes the ecological significance of far-red light sensing, raising questions about the sources of far-red light. Our analyses indicate that, although far-red wavelengths from sunlight are only detectable at the ocean surface, chlorophyll fluorescence and Raman scattering can generate red/far-red photons in deeper layers. This study opens up novel perspectives on phytochrome-mediated far-red light signaling in the ocean and on the light sensing and adaptive capabilities of marine phototrophs.

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“…cry1 genes and cry2 gene are clustered with cry1 genes and cry2 genes from tetrapods, respectively. Besides, cry5 appears to diverge earlier than cry1 and cry2 in the phylogenetic trees, and it has been reported to be clustered with 6-4 photolyases in previous phylogenetic studies (Oliveri et al, 2014), which can catalyze light-dependent DNA repair (Todo et al, 1993). Therefore, these results indicate that medaka cry1aa, cry1ab, cry1ba might be mammalian-like cry genes, and cry2 might be Drosophila-like genes, whereas cry5 belongs to photolyase genes.…”

Section: Discussionmentioning

confidence: 58%

Identification of medaka magnetoreceptor and cryptochromes

Chen

Zhu

Hong

2016

Sci. China Life Sci.

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Magnetoreception is a hallmark ability of animals for orientation and migration via sensing and utilizing geomagnetic fields. Magnetoreceptor (MagR) and cryptochromes (Cry) have recently been identified as the basis for magnetoreception in Drosophila. However, it has remained unknown whether MagR and Cry have conserved roles in diverse animals. Here we report the identification and expression of magr and cry genes in the fish medaka (Oryzias latipes). Cloning and sequencing identified a single magr gene, four cry genes and one cry-like gene in medaka. By sequence alignment, chromosomal synteny and gene structure analysis, medaka cry2 and magr were found to be the orthologs of human Cry2 and Magr, with cry1aa and cry1ab being coorthologs of human Cry1. Therefore, magr and cry2 have remained as single copy genes, whereas cry1 has undergone two rounds of gene duplication in medaka. Interestingly, magr and cry genes were detected in various stages throughout embryogenesis and displayed ubiquitous expression in adult organs rather than specific or preferential expression in neural organs such as brain and eye. Importantly, magr knockdown by morpholino did not produce visible abnormality in developing embryos, pointing to the possibility of producing viable magr knockouts in medaka as a vertebrate model for magnet biology. magnetoreception, MagR, cryptochrome, magnetogenetics

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The Cryptochrome/Photolyase Family in aquatic organisms

Cited by 82 publications

References 108 publications

Fungal cryptochrome with DNA repair activity reveals an early stage in cryptochrome evolution

Fungal cryptochrome with DNA repair activity reveals an early stage in cryptochrome evolution

Diatom Phytochromes Reveal the Existence of Far-Red-Light-Based Sensing in the Ocean

Identification of medaka magnetoreceptor and cryptochromes

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