Gonadal Transcriptome Analysis of Male and Female Olive Flounder (<i>Paralichthys olivaceus</i>)

Fan, Zusen; You, Feng; Wang, Lijuan; Shenda, Weng; Wu, Zhihao; Hu, Jian; Zou, Yuxia; Tan, Xungang; Zhang, Peijun

doi:10.1155/2014/291067

Cited by 63 publications

(55 citation statements)

References 51 publications

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“…Further, nothing is known about possible hidden alterations, particularly in the resistant females mentioned above, which exhibit an otherwise apparently normal ovarian morphology. Thus, to date, most gonadal transcriptomic studies have been focused on the sexrelated differences in adult gonads: Olive flounder (Paralichthys olivaceus; Fan et al, 2014); yellow catfish (Pelteobagrus fulvidraco; Lu et al, 2014); zebrafish (Small, Carney, Mo, Vannucci, & Jones, 2009;Sreenivasan et al, 2008). Few studies reported the influences of elevated temperature on the gonadal transcriptomes, one in zebrafish (Ribas, Liew, et al, 2017) and the other in the Nile tilapia (Sun et al, 2018).…”

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confidence: 99%

Ovarian transcriptomic signatures of zebrafish females resistant to different environmental perturbations

2019

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Sex is remarkably plastic in fish and can be easily influenced by environmental cues, in which temperature has been the most studied abiotic factor. However, it has been shown that elevated population densities can increase the number of males in several species but little is known about the underlying molecular mechanisms and whether general patterns exist. Here, we studied the long‐term effects of population density on the gene expression program in zebrafish gonads. The ovarian transcriptome of females exposed to high versus low population densities contained 4,634 differentially expressed genes. Among them, a set of promale genes (amh, sypc3, spata6, and sox3) were upregulated in the high‐population density group. Next, we compared the transcriptomes of ovaries of female zebrafish resistant to the masculinizing effects of either high density or elevated temperature. Results showed a set of 131 and 242 common upregulated and downregulated genes, respectively, including the upregulation of known male‐related genes (e.g., amh and sycp3) but also genes involved in other functions (e.g., faima, ccm21, and ankrd6b) and a downregulation of cyp19a1a together with other genes (e.g., lgals9l1 and ubxn2a). We identified the common Gene Ontology terms involved in the reproduction and sexual development that were consistently affected in both environmental factors. These results show that regardless of the environmental perturbation there are common genes and cellular functions involved in the resistance to masculinization. These altered gene‐expression profiles can be used as markers indicative of previous exposure to environmental stress independent of conspicuous alterations in sex ratios or gonadal morphology.

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confidence: 99%

Ovarian transcriptomic signatures of zebrafish females resistant to different environmental perturbations

2019

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“…Although N50 is not an exact parameter to measure the accuracy of contigs (Salzberg et al, 2012), it is one of the most popular reference-free measures (Li et al, 2014). The N50 value was in the range reported for other transcriptome de novo fish studies (Milano et al, 2011;Fan et al, 2014;Schunter et al, 2014). …”

Section: Resultsmentioning

confidence: 77%

De novo Assembly, Characterization and Functional Annotation of Southern Hake (Merluccius australis) Transcriptome

Reyes¹,

Gold

González³

et al. 2016

Front. Mar. Sci.

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Southern hake (Merluccius australis) is an ecological and economically important demersal fish in Chile and Argentina. Notwithstanding, genetic resource for genetic or ecological studies on this species are scarce. Consequently, here we present transcriptome sequencing results (RNA-Seq) for spleen and liver tissues with the 454 FLX titanium platform. The de novo transcriptome assembly generated 10,314 unigenes, with an average length of 510 bp, N50 of 572 bp and 3171 annotated sequences. A specific Gadiform BLAST search, with focus on immune genes, showed 186 (56%) genes homologous to those of Atlantic cod. A total of 2302 microsatellites were detected in 1687 unigenes and 741 presented adequate flanking sequences for primer design. In total, these potential molecular markers and transcriptome characterization represent an important resource for genetic and ecological studies on southern hake.

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“…Based on calculation criterion of FDR<0.05 and log2|FC|≧1, 38,167 unigenes showied signifcant expression difference between male and female individuals, including 5,892 (15.44%) male-biased unigenes and 942 (2.47%) female-biased unigenes ( Fig 6). According to our sequence analysis and other published search strategies [5], sex-related well-documented genes were identifed (Table 2). Obviously, many sex-linked genes, especially those located upstream of gonadal development regulatory network, had much more significant difference trend in expression levels, such as dmrt1, foxl2, cyp19a, and so on.…”

Section: Sex-related Genes Idetification From Comparison Of Gonad Tismentioning

confidence: 99%

Transcriptome analysis of Culter alburnus gonad tissues for discovery of sex-related genes

Zheng

Jia

Liu

et al. 2018

Preprint

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Culter alburnus is an important commercially fish species for freshwater breeding in China, and the females grow faster than the males. However, the molecular genetic mechanism of sex determination in C.alburnus is still poorly characterized. Here, we performed de novo assembly of a transcriptome from adult fish tissues of different gender using short read sequencing technology (Illumina). Our results showed that a total of 364,650 unigenes using Trinity software were obtained, giving rise to an average of 561.92 bp per read. Among them, 70,215 sequences matched known genes, including 5,892 male-biased unigenes and 942 female-biased unigenes. Many sex-related genes and pathways were identified based on annotation information. These results would provide new insights into the genetic mechanism of C.alburnus sex determination and also establish an important foundation for further research on aquaculture breeding.Culter alburnus is one kind of important fish species for freshwater breeding in China, and the female individual grows faster than the male one. Thus, developing sex control technology to produce all female population can improve breeding yield and increase economic income. Although we succeeded to obtain all female species through gynogenesis and sex reversal, the genetic mechanism of sex determination in C.alburnus is still poorly characterized. These remaining problems severely limit sex control breeding technology application in C.alburnus.Recently, with advancements in next-generation sequencing technologies, transcriptome profiling provides an invaluable tool for gene discovery and functional analysis [1]. So far, several fish species that involved in sex determination and differentiation by RNA-seq are reported, including Oreochromis niloticus [2], Xiphophorus maculatus [3], Ictalurus punctatus [4], Paralichthys olivaceus [5], Danio rerio [6], Oncorhynchus mykiss [7], and so on. These transcriptome sequencing

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Gonadal Transcriptome Analysis of Male and Female Olive Flounder (Paralichthys olivaceus)

Cited by 63 publications

References 51 publications

Ovarian transcriptomic signatures of zebrafish females resistant to different environmental perturbations

Ovarian transcriptomic signatures of zebrafish females resistant to different environmental perturbations

De novo Assembly, Characterization and Functional Annotation of Southern Hake (Merluccius australis) Transcriptome

Transcriptome analysis of Culter alburnus gonad tissues for discovery of sex-related genes

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