Transcriptome Sequencing Reveals the Traits of Spermatogenesis and Testicular Development in Large Yellow Croaker (Larimichthys crocea)

Luo, Shengyu; Gao, Xinming; Ding, Jie; Liu, Cheng; Du, Chang; Hou, Cong-Cong; Zhu, Junquan; Liu, Bao

doi:10.3390/genes10120958

Cited by 20 publications

(11 citation statements)

References 72 publications

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“…In the present study, the neuroactive ligand-receptor interaction pathway was signi cantly enriched by both the DEGs identi ed in the pituitary gland, testis and external genitalia between NEGG and AEGG groups. Transcriptome studies in poultry [16], goat [28], and yellow croaker sh [29] have also demonstrated the important role of this pathway in the control of reproductive activities. Furthermore, almost all DEGs enriched in this pathway, including KNG1, LPAR2, LPAR3, NPY, AVPR1B, GHSR, GRM3, HTR5A, FSHB, and FSHR, were signi cantly up-or down-regulated in the pituitary gland, testis and external genitalia between NEGG and AEGG groups.…”

Section: Discussionmentioning

confidence: 99%

Comparative Transcriptome Analysis Identifies Crucial Candidate Genes and Pathways in The Hypothalamic-Pituitary-Gonadal Axis During External Genitalia Development of Male Geese

Tang

Ouyang

et al. 2021

Preprint

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Background All birds reproduce via internal fertilization, but only ~ 3% of male birds possess the external genitalia that allows for intromission. Waterfowl (e.g., duck and goose) are representatives of them, and the external genitalia development of male geese is directly related to mating ability. Notably, some male geese show abnormal external genitalia development during ontogenesis. However, until now little is known about the molecular mechanisms of the external genitalia development in goose. In the present study, comparative transcriptomic analyses were performed on the hypothalamus, pituitary gland, testis, and external genitalia isolated from the 245-day-old male Tianfu meat geese showing normal (NEGG, n = 3) and abnormal (AEGG, n = 3) external genitals in order to provide a better understanding of the mechanisms controlling the development of the external genitalia in aquatic bird species. Results There were 107, 284, 2192, and 1005 differentially expressed genes (DEGs) identified in the hypothalamus, pituitary gland, testis and external genitalia between NEGG and AEGG. Functional enrichment analysis indicated that the DEGs identified in the hypothalamus were mainly enriched in the ECM-receptor interaction pathway. The ECM-receptor interaction, focal adhesion, and neuroactive ligand-receptor interaction pathways were significantly enriched by the DEGs in the pituitary gland. In the testis, the DEGs were involved in the neuroactive ligand-receptor interaction, cell cycle, oocyte meiosis and purine metabolism. In the external genitalia, the DEGs were mainly involved in the metabolic, neuroactive ligand-receptor interaction and WNT signaling pathways. Additionally, through protein-protein interaction (PPI) network and co-expression network integrated analysis, fifteen genes involved in the neuroactive ligand-receptor interaction and WNT signaling pathways were identified, including KNG1, LPAR2, LPAR3, NPY, PLCB1, AVPR1B, GHSR, GRM3, HTR5A, FSHB, FSHR, WNT11, WNT5A, WIF1, and WNT7B, which are potentially crucial for the development of goose external genitalia. Conclusions To our knowledge, this study is the first comparing the hypothalamus, pituitary gland, testis, and external genitalia transcriptomes of male geese exhibiting normal and abnormal external genitals. Significantly, we identified the key DEGs involved in the neuroactive ligand-receptor interaction pathway which regulates the WNT signaling pathway through PLCB1 to control the development of male goose external genitalia.

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Section: Discussionmentioning

confidence: 99%

Comparative Transcriptome Analysis Identifies Crucial Candidate Genes and Pathways in The Hypothalamic-Pituitary-Gonadal Axis During External Genitalia Development of Male Geese

Tang

Ouyang

et al. 2021

Preprint

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“…To generate the clean reads, raw reads were purified by removing ploy-N contained and low-quality reads. Clean reads were mapped to reference bovine genome UMD3.1 [ 27 ].…”

Section: Methodsmentioning

confidence: 99%

Lactation Associated Genes Revealed in Holstein Dairy Cows by Weighted Gene Co-Expression Network Analysis (WGCNA)

Fan

Arbab

Zhang

et al. 2021

Animals

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Weighted gene coexpression network analysis (WGCNA) is a novel approach that can quickly analyze the relationships between genes and traits. In this study, the milk yield, lactose, fat, and protein of Holstein dairy cows were detected in a lactation cycle. Meanwhile, a total of 18 gene expression profiles were detected using mammary glands from six lactation stages (day 7 to calving, −7 d; day 30 post-calving, 30 d; day 90 post-calving, 90 d; day 180 post-calving, 180 d; day 270 post-calving, 270 d; day 315 post-calving, 315 d). On the basis of the 18 profiles, WGCNA identified for the first time 10 significant modules that may be related to lactation stage, milk yield, and the main milk composition content. Genes in the 10 significant modules were examined with gene ontology (GO) annotation and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis. The results revealed that the galactose metabolism pathway was a potential candidate for milk yield and milk lactose synthesis. In −7 d, ion transportation was more frequent and cell proliferation related terms became active. In late lactation, the suppressor of cytokine signaling 3 (SOCS3) might play a role in apoptosis. The sphingolipid signaling pathway was a potential candidate for milk fat synthesis. Dairy cows at 315 d were in a period of cell proliferation. Another notable phenomenon was that nonlactating dairy cows had a more regular circadian rhythm after a cycle of lactation. The results provide an important theoretical basis for the further molecular breeding of dairy cows.

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“…For example, Tdrd1 was verified to be germline-enriched and sexual dimorphically expressed in Japanese flounder (Zhao et al 2018). In addition, it was testis-specifically expressed in large yellow croaker (Larimichthys crocea) (Luo et al 2019). Tdrd12 was reported to be important in germ-cell development and maintenance in zebrafish (Dai et al 2017).…”

Section: Germline Enriched Expression Of Tdrd Genes In Teleost Speciesmentioning

confidence: 99%

Evolutionary dynamics and conserved function of the Tudor domain-containing (TDRD) proteins in teleost fish

Liu

Guo

et al. 2021

Mar Life Sci Technol

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Tudor domain-containing (TDRD) proteins, the germline enriched protein family, play essential roles in the process of gametogenesis and genome stability through their interaction with the PIWI-interacting RNA (piRNA) pathway. Several studies have suggested the rapid evolution of the piRNA pathway in teleost lineages with striking reproductive diversity. However, there is still limited information about the function and evolution of Tdrd genes in teleost species. In this study, through genome wide screening, 13 Tdrd family genes were identified in economically important aquaculture fish, including spotted sea bass (Lateolabrax maculatus), Asian sea bass (Lates calcarifer), and tongue sole (Cynoglossus semilaevis). With copy number, structure, phylogeny, and synteny analysis, duplication of Tdrd6 and Tdrd7, as well as loss of Stk31 and Tdrd10, were characterized in teleost lineages. Codon based molecular evolution analysis indicated faster evolution of teleost Tdrd genes than that in mammals, potentially associated with the accelerated evolution of the piRNA pathway in teleost lineages. The evolutionary diversity of Tdrd genes was also detected between different teleost lineages. RNA-seq analysis showed that most teleost Tdrd genes were dominantly expressed in gonads, particularly highly expressed in testis, such as Tdrd6, Tdrd7a, Tdrd9, Ecat8, and Tdrd15. The varied expression and evolutionary pattern between the duplicated Tdrd6 and Tdrd7 in teleosts may indicate their functional diversification. All these results suggest a conserved function of teleost Tdrd family in gametogenesis and the piRNA pathway, which could lay a foundation for the evolution of Tdrd genes and be helpful for further deciphering of Tdrd functions in teleosts.

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Transcriptome Sequencing Reveals the Traits of Spermatogenesis and Testicular Development in Large Yellow Croaker (Larimichthys crocea)

Cited by 20 publications

References 72 publications

Comparative Transcriptome Analysis Identifies Crucial Candidate Genes and Pathways in The Hypothalamic-Pituitary-Gonadal Axis During External Genitalia Development of Male Geese

Comparative Transcriptome Analysis Identifies Crucial Candidate Genes and Pathways in The Hypothalamic-Pituitary-Gonadal Axis During External Genitalia Development of Male Geese

Lactation Associated Genes Revealed in Holstein Dairy Cows by Weighted Gene Co-Expression Network Analysis (WGCNA)

Evolutionary dynamics and conserved function of the Tudor domain-containing (TDRD) proteins in teleost fish

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