Comparative Transcriptome Analysis of Heart Tissue in Response to Hypoxia in Silver Sillago (Sillago sihama)

Saetan, Wanida; Ye, Minghui; Lin, Xinghua; Lin, Xiaozhan; Zhang, Yulei; Huang, Yang; Du, Tao; Li, Guangli; Tian, Changxu

doi:10.1007/s11802-021-4692-5

Cited by 16 publications

(7 citation statements)

References 61 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…These biological processes have been studied in hypoxia response in some other aquatic organisms, including Oryzias melastigma, O. latipes, Sillago sihama, G. aculeatus, Gillichthys mirabilis, Fundulus grandis, Micropogonias undulatus, and Cyprinus carpio. , Pathways that are closely related to the glutamate–glutamine cycle, an important metabolic process in hypoxia responses of abalone mentioned in our previous study, including nicotinate and nicotinamide metabolism; aminoacyl-tRNA biosynthesis; valine, leucine, and isoleucine degradation; ABC transporter; glutamatergic synapse; circadian entrainment; and long-term depression, are also enriched by up-regulated and down-regulated SDEmRNAs in this study.…”

Section: Discussionmentioning

confidence: 99%

“…70,98 In addition, the roles of some biological processes in hypoxia responses and the phenotypic differentiation of hypoxia tolerance in abalone were emphasized by the results of mRNA and lncRNA transcriptome analysis, including DNA replication and repair, RNA transcription and degradation, cell cycle and meiosis, and hormone regulation. These biological processes have been studied in hypoxia response in some other aquatic organisms, including Oryzias melastigma, 99 O. latipes, 100 Sillago sihama, 101 G. aculeatus, 102 Gillichthys mirabilis, 103 Fundulus grandis, 104 Micropogonias undulatus, 105 and Cyprinus carpio. 106,107 Pathways that are closely related to the glutamate− glutamine cycle, an important metabolic process in hypoxia responses of abalone mentioned in our previous study, 47 including nicotinate and nicotinamide metabolism; aminoacyl-tRNA biosynthesis; valine, leucine, and isoleucine degradation; ABC transporter; glutamatergic synapse; circadian entrainment; and long-term depression, are also enriched by upregulated and down-regulated SDEmRNAs in this study.…”

Section: Genetic Basis and Plasticity Regulation Of Differentiation O...mentioning

confidence: 99%

See 1 more Smart Citation

Divergent Carry-Over Effects of Hypoxia during the Early Development of Abalone

Shen

Gao

Xiao

et al. 2022

Environ. Sci. Technol.

View full text Add to dashboard Cite

After being exposed to environmental stimuli during early developmental stages, some organisms may gain or weaken physiological regulating abilities, which would have long-lasting effects on their performance. Environmental hypoxia events can have significant effects on marine organisms, but for breeding programs and other practical applications, it is important to further explore the long-term physiological effects of early hypoxia exposure in economically significant species. In this study, the Pacific abalone Haliotis discus hannai was exposed to moderate hypoxia (∼4 mg/L) from zygote to trochophora, and the assessments of hypoxia tolerance were conducted on the grow-out stage. The results revealed that juvenile abalones exposed to hypoxia at the early development stages were more hypoxiatolerant but with slower weight growth, a phenomenon called the tradeoff between growth and survival. These phenotypic effects driven by the hypoxia exposure were explained by strong selection of genes involved in signal transduction, autophagy, apoptosis, and hormone regulation. Moreover, long non-coding RNA regulation plays an important role modulating carry-over effects by controlling DNA replication and repair, signal transduction, myocardial activity, and hormone regulation. This study revealed that the ability to create favorable phenotypic differentiation through genetic selection and/or epigenetic regulation is important for the survival and development of aquatic animals in the face of rapidly changing environmental conditions.

show abstract

Section: Discussionmentioning

confidence: 99%

Section: Genetic Basis and Plasticity Regulation Of Differentiation O...mentioning

confidence: 99%

Divergent Carry-Over Effects of Hypoxia during the Early Development of Abalone

Shen

Gao

Xiao

et al. 2022

Environ. Sci. Technol.

View full text Add to dashboard Cite

show abstract

“…This study verified the expression patterns of the OR gene family in S. sihama under hypoxic stress in the gill, heart and liver tissues. The hypoxia transcription sequencing databases (RNA-seq) of S. sihama were obtained from Saetan et al [ 38 , 39 ] and Tian et al [ 40 ]. Gene expression level under hypoxic stress was calculated by the FPKM (fragments per kilobase of transcript per million fragments mapped) method.…”

Section: Methodsmentioning

confidence: 99%

Genome-Wide Identification and Characterization of Olfactory Receptor Genes in Silver Sillago (Sillago sihama)

Lin

Zhang

et al. 2023

Animals

Self Cite

View full text Add to dashboard Cite

Olfactory receptor (OR) genes are essential in the specific recognition of diverse stimuli in fish. In this study, a total of 141 OR genes were identified in silver sillago (Sillago sihama), a marine fish sensitive to environmental stimuli, including 112 intact genes, 26 truncated genes, and three pseudogenes. A phylogenetic tree analysis elucidated that the OR genes of S. sihama were classified into six groups, of which β, γ, δ, ε, and ζ groups belonged to type I, and the η group belonged to type II. The type I OR genes contained almost all conserved motifs (n = 62), while type II OR genes mainly retained conserved motifs 7(3), 1, 10, 4, and 2 (n = 39). OR genes were mainly distributed on LG1, LG9, LG11, and LG12. Of all OR genes, 36.23% (50 genes) showed significant expansion in S. sihama. Ka/Ks analysis demonstrated that 227 sites were under purifying selection, while 12 sites were under positive selection, including eight genes in the OR2A12 gene subfamily. Sixty-one genes (44.20%) displayed differential expression under hypoxic stress. The identified OR genes explored the mechanism of environmental stress and ecological adaptation of S. sihama, and provided valuable genomic resources for further research on the olfaction of teleosts.

show abstract

“…Muscle development and muscle growth are directly relevant to the overall quality of fish meat ( Fuentes et al, 2013 ; Xu et al, 2019 ). The heart plays a crucial role in pumping oxygen and nutrients and dealing with environmental stress ( Saetan et al, 2021 ). The liver is involved in various metabolic processes that support fish growth, including but not limited to metabolism, nutrient storage, energy production, and detoxification ( Zhang et al, 2021 ).…”

Section: Introductionmentioning

confidence: 99%

Transcriptome analysis revealed potential mechanisms of channel catfish growth advantage over blue catfish in a tank culture environment

Wang,

Su,

Zhang

et al. 2024

Front. Genet.

View full text Add to dashboard Cite

Channel catfish (Ictalurus punctatus) and blue catfish (Ictalurus furcatus) are two economically important freshwater aquaculture species in the United States, with channel catfish contributing to nearly half of the country’s aquaculture production. While differences in economic traits such as growth rate and disease resistance have been noted, the extent of transcriptomic variance across various tissues between these species remains largely unexplored. The hybridization of female channel catfish with male blue catfish has led to the development of superior hybrid catfish breeds that exhibit enhanced growth rates and improved disease resistance, which dominate more than half of the total US catfish production. While hybrid catfish have significant growth advantages in earthen ponds, channel catfish were reported to grow faster in tank culture environments. In this study, we confirmed channel fish’s superiority in growth over blue catfish in 60-L tanks at 10.8 months of age (30.3 g and 11.6 g in this study, respectively; p < 0.001). In addition, we conducted RNA sequencing experiments and established transcriptomic resources for the heart, liver, intestine, mucus, and muscle of both species. The number of expressed genes varied across tissues, ranging from 5,036 in the muscle to over 20,000 in the mucus. Gene Ontology analysis has revealed the functional specificity of differentially expressed genes within their respective tissues, with significant pathway enrichment in metabolic pathways, immune activity, and stress responses. Noteworthy tissue-specific marker genes, including lrrc10, fabp2, myog, pth1a, hspa9, cyp21a2, agt, and ngtb, have been identified. This transcriptome resource is poised to support future investigations into the molecular mechanisms underlying environment-dependent heterosis and advance genetic breeding efforts of hybrid catfish.

show abstract

Comparative Transcriptome Analysis of Heart Tissue in Response to Hypoxia in Silver Sillago (Sillago sihama)

Cited by 16 publications

References 61 publications

Divergent Carry-Over Effects of Hypoxia during the Early Development of Abalone

Divergent Carry-Over Effects of Hypoxia during the Early Development of Abalone

Genome-Wide Identification and Characterization of Olfactory Receptor Genes in Silver Sillago (Sillago sihama)

Transcriptome analysis revealed potential mechanisms of channel catfish growth advantage over blue catfish in a tank culture environment

Contact Info

Product

Resources

About