Transcriptomic analysis provides insights into candidate genes and molecular pathways involved in growth of Manila clam Ruditapes philippinarum

Nie, Hongtao; Zheng, Mengge; Wang, Zhenxing; Xu, Qiaoyue; Yin, Zhihui; Zhang, Yanming; Yan, Xiwu

doi:10.1007/s10142-021-00780-1

Cited by 13 publications

(3 citation statements)

References 52 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Our understanding of the molecular pathways involved in bivalve myogenesis is incomplete, though the Hh pathway has been implicated in myogenesis in oysters (Li et al 2018 ). The insulin, PI3K-Akt, and mTOR pathways have been shown to correlate with growth rates in clams (Nie et al 2021 ), though causal relationships have not been definitively established and effects in tissues besides muscle cannot be ruled out. In oysters, these pathways seem to be similarly correlated to muscle growth (Choi et al 2018 ; Kim and Choi 2019 ) and a number of newly characterized insulin-like peptides appear to be critically, but variously, involved in muscle growth regulation (Li et al 2021 ).…”

Section: Myogenesis and Adipogenesis In Aquatic Invertebratesmentioning

confidence: 99%

Differentiation and Maturation of Muscle and Fat Cells in Cultivated Seafood: Lessons from Developmental Biology

Bomkamp¹,

Musgrove

Marques

et al. 2022

Mar Biotechnol

View full text Add to dashboard Cite

Cultivated meat, also known as cultured or cell-based meat, is meat produced directly from cultured animal cells rather than from a whole animal. Cultivated meat and seafood have been proposed as a means of mitigating the substantial harms associated with current production methods, including damage to the environment, antibiotic resistance, food security challenges, poor animal welfare, and—in the case of seafood—overfishing and ecological damage associated with fishing and aquaculture. Because biomedical tissue engineering research, from which cultivated meat draws a great deal of inspiration, has thus far been conducted almost exclusively in mammals, cultivated seafood suffers from a lack of established protocols for producing complex tissues in vitro. At the same time, fish such as the zebrafish Danio rerio have been widely used as model organisms in developmental biology. Therefore, many of the mechanisms and signaling pathways involved in the formation of muscle, fat, and other relevant tissue are relatively well understood for this species. The same processes are understood to a lesser degree in aquatic invertebrates. This review discusses the differentiation and maturation of meat-relevant cell types in aquatic species and makes recommendations for future research aimed at recapitulating these processes to produce cultivated fish and shellfish.

show abstract

Section: Myogenesis and Adipogenesis In Aquatic Invertebratesmentioning

confidence: 99%

Differentiation and Maturation of Muscle and Fat Cells in Cultivated Seafood: Lessons from Developmental Biology

Bomkamp¹,

Musgrove

Marques

et al. 2022

Mar Biotechnol

View full text Add to dashboard Cite

show abstract

“…Understanding the regulatory steps at work during the different stages of early development is critical to artificial breeding and developmental biology research. The growth traits variability and developmental process of the Manila clam has been described in our previous study [25,26], however, the dynamic changes of distinct classes of genes during embryo and larvae development of the Manila clam is still largely unexplored. In this study, we focused on the molecular processes involved in different developmental stages of Manila clam.…”

Section: Introductionmentioning

confidence: 95%

Comparative transcriptomic analysis revealed dynamic changes of distinct classes of genes during development of the Manila clam (Ruditapes philippinarum)

et al. 2022

Self Cite

View full text Add to dashboard Cite

Background The Manila clam Ruditapesphilippinarum is one of the most economically important marine shellfish. However, the molecular mechanisms of early development in Manila clams are largely unknown. In this study, we collected samples from 13 stages of early development in Manila clam and compared the mRNA expression pattern between samples by RNA-seq techniques. Results We applied RNA-seq technology to 13 embryonic and larval stages of the Manila clam to identify critical genes and pathways involved in their development and biological characteristics. Important genes associated with different morphologies during the early fertilized egg, cell division, cell differentiation, hatching, and metamorphosis stages were identified. We detected the highest number of differentially expressed genes in the comparison of the pediveliger and single pipe juvenile stages, which is a time when biological characteristics greatly change during metamorphosis. Gene Ontology (GO) enrichment analysis showed that expression levels of microtubule protein-related molecules and Rho genes were upregulated and that GO terms such as ribosome, translation, and organelle were enriched in the early development stages of the Manila clam. Kyoto Encyclopedia of Genes and Genomes pathway analysis showed that the foxo, wnt, and transforming growth factor-beta pathways were significantly enriched during early development. These results provide insights into the molecular mechanisms at work during different periods of early development of Manila clams. Conclusion These transcriptomic data provide clues to the molecular mechanisms underlying the development of Manila clam larvae. These results will help to improve Manila clam reproduction and development.

show abstract

“…High-throughput RNA sequencing technology (RNA-Seq) is an effective technique that can be used to study gene function and structure at the holistic level [ 6 ]. A variety of animals have been studied using this technique to explore reproductive mechanisms, including humans [ 7 ], drosophilae [ 8 ], mice [ 9 ], goats [ 10 ], and boars [ 11 ].…”

Section: Introductionmentioning

confidence: 99%

Transcriptomic Study of Spermatogenesis in the Testis of Hu Sheep and Tibetan Sheep

Yang

Yan

et al. 2022

Genes

View full text Add to dashboard Cite

Numerous genes involved in male reproduction regulate testis development and spermatogenesis. In this study, the testis tissue transcriptome was used to identify candidate genes and key pathways associated with fecundity in sheep. Histological analysis of testis tissue using hematoxylin–eosin (HE) routine staining was performed for two sheep breeds. Overall, 466 differentially expressed genes (DEGs) were identified between Hu sheep (HS) and Tibetan sheep (TS) through RNA sequencing technology (RNA-Seq), including 226 upregulated and 240 downregulated genes. Functional analysis showed that several terms and pathways, such as “protein digestion and absorption”, “cAMP signaling pathway”, “focal adhesion”, and “p53 signaling pathway” were closely related to testis development and spermatogenesis. Several genes (including COL1A1, COL1A2, COL3A1, SOX9, BCL2, HDC, and GGT5) were significantly enriched in these terms and pathways and might affect the reproduction of sheep by regulating the migration of spermatogenic cells, apoptosis of spermatogenic cells, and secretion of sterol hormones via testicular interstitial cells. Our results provide a theoretical basis for better understanding the molecular mechanisms of reproduction in sheep.

show abstract

Transcriptomic analysis provides insights into candidate genes and molecular pathways involved in growth of Manila clam Ruditapes philippinarum

Cited by 13 publications

References 52 publications

Differentiation and Maturation of Muscle and Fat Cells in Cultivated Seafood: Lessons from Developmental Biology

Differentiation and Maturation of Muscle and Fat Cells in Cultivated Seafood: Lessons from Developmental Biology

Comparative transcriptomic analysis revealed dynamic changes of distinct classes of genes during development of the Manila clam (Ruditapes philippinarum)

Transcriptomic Study of Spermatogenesis in the Testis of Hu Sheep and Tibetan Sheep

Contact Info

Product

Resources

About