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• W4377940246 abstract "ABSTRACT Microbial rhodopsins are found more than once in a single genome (paralogs) often have different functions. We screened a large dataset of open ocean single-amplified genomes (SAGs) for co-occurrences of multiple rhodopsin genes. Many such cases were found among Pelagibacterales (SAR11), HIMB59, and the Gammaproteobacteria Pseudothioglobus SAGs. These genomes always had a bona fide proteorhodopsin and a separate cluster of genes containing a second rhodopsin associated with a predicted flotillin coding gene and have thus been named flotillin-associated rhodopsins (FArhodopsins). Although they are members of the proteorhodopsin protein family, they form a separate clade within that family and are quite divergent from known proton-pumping proteorhodopsins. They contain either DTT, DTL, or DNI motifs in their key functional amino acids. FArhodopsins are mainly associated with the lower layers of the epipelagic zone. All marine FArhodopsins had the retinal binding lysine, but we found relatives in freshwater metagenomes lacking this key amino acid. AlphaFold predictions of marine FArhodopsins indicate that their retinal pocket might be very reduced or absent, hinting that they are retinal-less. Freshwater FArhodopsins were more diverse than marine ones, but we could not determine if there were other rhodopsins in the genome due to the lack of SAGs or isolates. Although the function of FArhodopsins could not be established, their conserved genomic context indicated involvement in the formation of membrane microdomains. The conservation of FArhodopsins in diverse and globally abundant microorganisms suggests that they may be important in the adaptation to the twilight zone of aquatic environments. IMPORTANCE Rhodopsins have been shown to play a key role in the ecology of aquatic microbes. Here, we describe a group of widespread rhodopsins in aquatic microbes associated with dim light conditions. Their characteristic genomic context found in both marine and freshwater environments indicates a novel potential involvement in membrane microstructure that could be important for the function of the coexisting proteorhodopsin proton pumps. The absence or reduction of the retinal binding pocket points to a drastically different physiological role." @default.
• W4377940246 created "2023-05-25" @default.
• W4377940246 creator A5004746159 @default.
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• W4377940246 date "2023-06-29" @default.
• W4377940246 modified "2023-10-18" @default.
• W4377940246 title "Flotillin-associated rhodopsin (FArhodopsin), a widespread paralog of proteorhodopsin in aquatic bacteria with streamlined genomes" @default.
• W4377940246 cites W193749522 @default.
• W4377940246 cites W1963898183 @default.
• W4377940246 cites W1980239136 @default.
• W4377940246 cites W1993460406 @default.
• W4377940246 cites W2006618132 @default.
• W4377940246 cites W2013935032 @default.
• W4377940246 cites W2017911769 @default.
• W4377940246 cites W2037779370 @default.
• W4377940246 cites W2045204781 @default.
• W4377940246 cites W2055305007 @default.
• W4377940246 cites W2059997873 @default.
• W4377940246 cites W2062021082 @default.
• W4377940246 cites W2072590703 @default.
• W4377940246 cites W2072735392 @default.
• W4377940246 cites W2073319491 @default.
• W4377940246 cites W2079075989 @default.
• W4377940246 cites W2081600854 @default.
• W4377940246 cites W2094421396 @default.
• W4377940246 cites W2095883429 @default.
• W4377940246 cites W2097444755 @default.
• W4377940246 cites W2109867978 @default.
• W4377940246 cites W2111464236 @default.
• W4377940246 cites W2111647009 @default.
• W4377940246 cites W2112364185 @default.
• W4377940246 cites W2113350312 @default.
• W4377940246 cites W2115888213 @default.
• W4377940246 cites W2116423958 @default.
• W4377940246 cites W2121462614 @default.
• W4377940246 cites W2127175247 @default.
• W4377940246 cites W2131271579 @default.
• W4377940246 cites W2132926880 @default.
• W4377940246 cites W2135621733 @default.
• W4377940246 cites W2143485490 @default.
• W4377940246 cites W2156901916 @default.
• W4377940246 cites W2158714788 @default.
• W4377940246 cites W2167646059 @default.
• W4377940246 cites W2169929748 @default.
• W4377940246 cites W2170034980 @default.
• W4377940246 cites W2171777099 @default.
• W4377940246 cites W2473620285 @default.
• W4377940246 cites W2520785555 @default.
• W4377940246 cites W2525132236 @default.
• W4377940246 cites W2559574135 @default.
• W4377940246 cites W2694890465 @default.
• W4377940246 cites W2745006471 @default.
• W4377940246 cites W2759689312 @default.
• W4377940246 cites W2760591883 @default.
• W4377940246 cites W2765394484 @default.
• W4377940246 cites W2793041711 @default.
• W4377940246 cites W2809037155 @default.
• W4377940246 cites W2839140459 @default.
• W4377940246 cites W2891233979 @default.
• W4377940246 cites W2899376262 @default.
• W4377940246 cites W2944634798 @default.
• W4377940246 cites W2966335101 @default.
• W4377940246 cites W2972825120 @default.
• W4377940246 cites W2979331061 @default.
• W4377940246 cites W2986925300 @default.
• W4377940246 cites W2994946714 @default.
• W4377940246 cites W2995063445 @default.
• W4377940246 cites W2997459930 @default.
• W4377940246 cites W3005463796 @default.
• W4377940246 cites W3022754525 @default.
• W4377940246 cites W3092518244 @default.
• W4377940246 cites W3095583226 @default.
• W4377940246 cites W3099926419 @default.
• W4377940246 cites W3112675751 @default.
• W4377940246 cites W3159844087 @default.
• W4377940246 cites W3177828909 @default.
• W4377940246 cites W3193083197 @default.
• W4377940246 cites W3197181812 @default.
• W4377940246 cites W4206950245 @default.
• W4377940246 cites W4210552734 @default.
• W4377940246 cites W4211131382 @default.
• W4377940246 cites W4221028201 @default.
• W4377940246 cites W4223551334 @default.
• W4377940246 cites W4281765321 @default.
• W4377940246 cites W4281790889 @default.
• W4377940246 cites W4290960304 @default.
• W4377940246 cites W4293037587 @default.
• W4377940246 cites W4300688669 @default.
• W4377940246 cites W4304193890 @default.
• W4377940246 cites W4312128887 @default.
• W4377940246 cites W4319656992 @default.
• W4377940246 doi "https://doi.org/10.1128/msystems.00008-23" @default.
• W4377940246 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/37222519" @default.
• W4377940246 hasPublicationYear "2023" @default.

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