Characterization, expression, and response to stress of p8 gene in amphioxus

Characterization of Full-Length Transcriptome Sequences and Splice Variants of Lateolabrax maculatus by Single-Molecule Long-Read Sequencing and Their Involvement in Salinity Regulation

Transcriptome complexity plays crucial roles in regulating the biological functions of eukaryotes. Except for functional genes, alternative splicing and fusion transcripts produce a vast expansion of transcriptome diversity. In this study, we applied PacBio single-molecule long-read sequencing technology to unveil the whole transcriptome landscape of Lateolabrax maculatus. We obtained 28,809 high-quality non-redundant transcripts, including 18,280 novel isoforms covering 8,961 annotated gene loci within the current reference genome and 3,172 novel isoforms. A total of 10,249 AS events were detected, and intron retention was the predominant AS event. In addition, 1,359 alternative polyadenylation events, 3,112 lncRNAs, 29,609 SSRs, 365 fusion transcripts, and 1,194 transcription factors were identified in this study. Furthermore, we performed RNA-Seq analysis combined with Iso-Seq results to investigate salinity regulation mechanism at the transcripts level. A total of 518 transcripts were differentially expressed, which were further divided into 8 functional groups. Notably, transcripts from the same genes exhibited similar or opposite expression patterns. Our study provides a comprehensive view of the transcriptome complexity in L. maculatus, which significantly improves current gene models. Moreover, the diversity of the expression patterns of transcripts may enhance the understanding of salinity regulatory mechanism in L. maculatus and other euryhaline teleosts.

Expression and roles of As-NUPR1 protein from Artemia sinica during embryo development and in response to salinity stress

As-NUPR1, a stress-related protein, plays an important role in post-diapause during embryonic development in the brine shrimp Artemia sinica. In the present study, successful expression of As-NUPR1 from the cDNA sequence isolated from A. sinica was demonstrated using a prokaryotic expression system. The recombinant protein consisted of 132 amino acids with a molecular weight of 15 kDa, and a predicted isoelectric point of 7.17. As-NUPR1 polyclonal antibodies were prepared by immunization of Balb/c mice with purified recombinant As-NUPR1 protein as an antigen, and immunological studies were carried out. Expression of As-NUPR1 during different developmental stages of the embryo and in response to salinity stress was analyzed in A. sinica using Western blots. The experimental results showed that the expression of As-NUPR1 is widely distributed at different developmental stages in A. sinica, and there was no tissue or organ specificity. Expression of As-NUPR1 decreased gradually during the diapause termination stage of embryo development, after which there was a general increase in expression after breaking the shell. In addition, As-NUPR1 expression was highly upregulated under conditions of high salinity. These results suggest that the As-NUPR1 protein is a stress-related protein that plays a role in protecting embryos from high salt damage in different embryonic developmental stages, especially during the post-diapause period.

Localization, developmental regulation and stress induction of p8-L1 and p8-L2 in zebrafish

The transcription cofactor, p8, has a basic helix-loop-helix motif and is involved in several metabolic processes. It has previously been reported that p8 plays an important role in stress response in zebrafish. We expanded on these studies to further investigate the roles of two p8-like cDNAs found in zerbrafish, p8-L1 and p8-L2. Zebrafish p8-L1 and p8-L2 cDNAs consist of 742 bp and 813 bp, respectively. Both have the same open reading frame despite different genomic structures and encode a 76 amino acid polypeptide with conserved a Phospho_p8 domain. These two cDNA’s were abundant in different tissues in the zebrafish: p8-L1 was high in intestine and muscle tissue and in low abundance in the backbone, whereas the highest amount of p8-L2 was found in the backbone, similar to p8. During embryogenesis, both p8-L1 and p8-L2 were abundant at the cleavage stage and decreased gradually in abundance from blastula to pharyngula stage. However, p8-L1 abundance increased during hatching as observed in p8. Quantitative real-time PCR assay suggested that p8-L1 and p8-L2 were both up-regulated significantly under osmotic pressure and pH value challenges, suggesting an important role of p8-L1 and p8-L2 genes in stress response.

Molecular characterization and expression of As-nurp1 gene from Artemia sinica during development and in response to salinity and temperature stress

Nuclear protein 1 (NURP1) is a stress-related protein and closely related to diapause in the development of Artemia. In the present paper, the full-length 568-bp cDNA sequence of the nurp1 homolog of Artemia sinica (As-nurp1) was isolated by RACE technology for the first time. The putative As-nurp1 protein consists of 66 amino acids with a basic helix-loop-helix (bHLH) motif and a bipartite nuclear localization signal (NLS). Multiple sequence alignments revealed that the putative As-nurp1 protein sequence was relatively conserved across species, especially in the bHLH domain. The expression of As-nurp1 is widely distributed during A. sinica development. This is followed by a dramatic downregulation after diapause and is newly upregulated from the larval nauplius stage. Furthermore, As-nurp1 transcripts are highly upregulated under conditions of high salinity and low temperature. These findings suggest that As-nurp1 is stress-related and may act as a protective factor in embryonic development.

Cloning and characterization of p8 homolog cDNA in the Atlantic halibut (Hippoglossus hippoglossus)

The p8 gene encodes a transcription factor known to modulate cell growth, division, and apoptosis and influences gene expression. In this study, an Atlantic halibut (Hippoglossus hippoglossus) homolog of the p8 gene was cloned, sequenced, and characterized. The full-length p8 cDNA consists of 601 bp and encodes 76 amino acids with a molecular mass of 9 kD. The bHLH region is well conserved between Atlantic halibut and other animals. Analysis by RT-PCR showed that the p8 transcript is constitutively expressed in 9 of the 12 tissues tested: pancreas, intestine, stomach, gill, head kidney, heart, liver, ovary, and spleen. A predicted microRNA target site was found in the 3'UTR of Atlantic halibut p8 mRNA. We speculate that the target site may pair to microRNA molecules because the target site resides in a big loop, a space large enough for the binding of microRNA molecules.

Tissue distribution, developmental expression and up-regulation of p8 transcripts on stress in zebrafish

The p8 is a transcription factor with a basic helix-loop-helix motif and a nuclear localization signal. A zebrafish p8 cDNA, which consists of 732 bp and encodes 75 amino acids, was identified in this paper. Sequence alignment showed that the bHLH region of p8 was well-conserved during the evolution. Phylogenetic analysis revealed that zebrafish p8 was close to its homologous protein in frog, together clustering to the clade of vertebrates. The zebrafish p8 mRNA expression levels varied much among the detected adult tissues, with the obvious higher expression in backbone and liver. During embryogenesis, the expression of zebrafish p8 mRNA was in higher levels in cleavage stage, decreased from blastula to segmentation stage, but sharply elevated at hatching stage. Quantitative real-time PCR assay suggested up-regulation expressions of zebrafish p8 on a wide range of cellular stressors such as starvation, temperature, osmotic pressure and pH value, implying an important role of p8 gene in response to stress.