Identification of olfactory receptor genes in the Japanese grenadier anchovy Coilia nasus

Zhu, Guoli; Tang, Wenyong; Wang, Xiaomei; Wang, Cong

doi:10.1007/s13258-017-0517-8

Cited by 15 publications

(6 citation statements)

References 73 publications

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“…Olfaction is essential for fish survival, due to its action in recognizing appropriate food, relatives, offspring, habitats, and predator avoidance [ 2 , 3 , 4 , 5 ]. Besides, the exquisite expression of OR genes in non-olfactory tissues, such as in the liver, heart, ovaries and testis, also indicates that OR genes probably display some other functions [ 6 , 7 , 8 , 9 ].…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Identification and Characterization of Olfactory Receptor Genes in Chinese Perch, Siniperca chuatsi

Liang

2019

Genes

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Olfaction, which is mediated by olfactory receptor (OR) genes, is essential in the daily life of fish, especially in foraging. However, Chinese perch (Siniperca chuatsi) is believed to prey with reliance on vision and lateral sensation, but not on olfaction. Therefore, understanding the evolutionary dynamics of the Chinese perch OR repertoire could provide insights into genetic evidence for adapting to a decreasing reliance on olfaction. Here, we reported a whole-genome analysis of the Chinese perch OR repertoire. Our analysis identified a total of 152 OR genes, including 123 functional genes and 29 pseudogenes, and showed their genomic organization. A phylogenetic tree was constructed, and the phylogenetic relationships of teleosts ORs was illustrated. The dN/dS (global ratios of non-synonymous to synonymous) analysis demonstrated that OR groups all appeared to be under purifying selection. Among the five Percomorpha fishes, Chinese perch only had 22 subfamilies, suggesting a decrease in OR diversities. The species-specific loss of subfamily 56 and 66 in Chinese perch, of which the genes belonged to subfamily 66, were orthologs of OR51E2, which recognized the plant odorant β-ionone, indicating that extremely piscivorous fish which might lose those receptors responded to plant-related odors. Finally, the expression profiles of OR genes in the olfactory epithelium at different developmental stages were investigated using RNA-seq data. From the aforementioned results, the evolution of the OR repertoire may be shaped by the adaption of vision-dependent specializations for foraging in Chinese perch. The first systematic study of OR genes in Chinese perch could provide valuable genomic resources for the further investigation of olfactory function in teleosts.

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Section: Introductionmentioning

confidence: 99%

Genome-Wide Identification and Characterization of Olfactory Receptor Genes in Chinese Perch, Siniperca chuatsi

Liang

2019

Genes

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“…Salmon primarily relies on smell to locate hatching/spawning sites accurately [70]. A similar olfactory gene was also found in C. nasus [71]. Therefore, C. nasus may also use "olfactory" memories to return to their hatcheries for breeding.…”

Section: Discussionmentioning

confidence: 79%

Revealing Population Connectivity of the Estuarine Tapertail Anchovy Coilia nasus in the Changjiang River Estuary and Its Adjacent Waters Using Otolith Microchemistry

Jiang

Liu

et al. 2022

Fishes

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The estuarine tapertail anchovy, Coilia nasus, is a migratory fish with high economic value in China. We collected fish from the Changjiang River (the Yangtze River) estuary, the Qiantang River estuary, and the southern Yellow Sea, and studied their relationships using otolith elemental and stable isotopic microchemistry signatures to assess the population connectivity of C. nasus. Results show that, in addition to Ca, other elements were present in the otolith core. The δ18O, Na/Ca, Fe/Ca, and Cu/Ca values of the Qiantang population were significantly higher than those of the others, whereas its δ13C and Ba/Ca values were found to be significantly lower. Otolith multi-element composition and stable isotope ratios differed significantly between the Qiantang and Changjiang estuary groups (p < 0.05); however, no difference was observed between the latter and the Yellow Sea group. Cluster analysis, linear discriminant analysis, and a self-organizing map strongly suggest possible connectivity between the fish populations of the Changjiang estuary and Yellow Sea, while the population of the Qiantang River estuary appears to be independent. Notably, results suggest a much closer connectivity between the fish populations of the Changjiang River and the Yellow Sea.

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“…We examined the evolutionary dynamics of the size of the OR gene repertoire in a broad sample of teleost fishes and found a larger range of variation than previously recognized (Niimura 2009; Zhu, et al 2017; Jiang, et al 2019; Lv, et al 2019). Large repertoires do not seem to result from bursts of gene duplication, but we identified several episodic high rates of gene pseudogenization that occurred at the root of clades with species that have very few OR genes.…”

Section: Discussionmentioning

confidence: 98%

Evolutionary dynamics of the OR gene repertoire in teleost fishes: evidence of an association with changes in olfactory epithelium shape

Policarpo

Bemis

Tyler

et al. 2021

Preprint

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Teleost fishes perceive their environment through a range of sensory modalities, among which olfaction often plays an important role. Richness of the olfactory repertoire depends on the diversity of receptors coded by homologous genes classified into four families: OR, TAAR, VR1 and VR2. Herein, we focus on the OR gene repertoire. While independent large contractions of the OR gene repertoire associated with ecological transitions have been found in mammals, little is known about the diversity of the OR gene repertoire and its evolution within teleost fishes, a group that includes more than 34,000 living species. We analyzed genomes of 163 species representing diversity in this large group. We found a large range of variation in the number of functional OR genes, from 15 in Syngnathus typhle and Mola mola, to 429 in Mastacembelus armatus. The number of OR genes was higher in species with an extensively folded olfactory epithelium, that is, for example, when a multi-lamellar rosette was present in the olfactory organ. Moreover, the number of lamellae was correlated with the richness of the OR gene repertoire. While a slow and balanced birth-and-death process generally drives evolution of the OR gene repertoire, we inferred several episodes of high rates of gene loss, sometimes followed by large gains in the number of OR genes. These gains coincide with morphological changes of the olfactory organ and suggest a strong functional association between changes in the morphology and the evolution of the OR gene repertoire.

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Identification of olfactory receptor genes in the Japanese grenadier anchovy Coilia nasus

Cited by 15 publications

References 73 publications

Genome-Wide Identification and Characterization of Olfactory Receptor Genes in Chinese Perch, Siniperca chuatsi

Genome-Wide Identification and Characterization of Olfactory Receptor Genes in Chinese Perch, Siniperca chuatsi

Revealing Population Connectivity of the Estuarine Tapertail Anchovy Coilia nasus in the Changjiang River Estuary and Its Adjacent Waters Using Otolith Microchemistry

Evolutionary dynamics of the OR gene repertoire in teleost fishes: evidence of an association with changes in olfactory epithelium shape

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