Effects of elevated ammonium on the transcriptome of the stony coral Pocillopora damicornis

Yuan, Chao; Zhou, Zhi; Zhang, Yidan; Chen, Guangmei; Yu, Xiaopeng; Ni, Xingzhen; Tang, Jia; Huang, Bo

doi:10.1016/j.marpolbul.2016.08.036

Cited by 27 publications

(12 citation statements)

References 42 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Upon bailing-out, a single mother colony can generate many coral polyps. It will be more convenient and controllable to conduct the experimental study for many cultured coral polyps at the same time in order to retrieve the reliable results in comparison to using small colonies or nubbins as the experimental units [37][38][39] . For example, it has been reported that the deterioration of the coral colonies under the low pH condition was initiated from the single coral polyps 28 .…”

Section: Discussionmentioning

confidence: 99%

A polyp-on-chip for coral long-term culture

Pang

Luo

et al. 2020

Sci Rep

View full text Add to dashboard Cite

Coral polyps are basic clonal biological units of reef corals. However, in vitro experimental model for long-term physiological and ecological studies has not been well developed due to the difficulty of effectively acquiring and culturing single polyps. This study developed an experimental platform based on microfluidics for culturing single coral polyps and tracing its growth state over time in the long run. The corresponding computational modeling was conducted to predict the metabolic processes under the static and dynamic conditions by coupling the mass transfer and reaction with Navier-Stokes equations. Design and fabrication of the microfluidic chip was the key to provide a constant laminar flow environment that enabled the controlled high oxygen and bicarbonate transfer for the cultivation of the single coral polyps. The single coral polyps were induced to bail out of the coral reef upon the chemical stress and cultured for more than fifteen days in the microfluidic chip. It was found that the single coral polyps in the microfluidic chip can maintain their normal metabolic process over the cultivation period, suggesting that our microfluidic platform can serve as a suitable tool to study the coral polyps by providing a controllable and suitable biological microenvironment.

show abstract

Section: Discussionmentioning

confidence: 99%

A polyp-on-chip for coral long-term culture

Pang

Luo

et al. 2020

Sci Rep

View full text Add to dashboard Cite

show abstract

“…After the evaluation of sequence quality and the removal of low quality reads, the clean reads in the all thirteen fragment library were used to assembly the transcripts and genes using the Trinity software ( http://trinityrnaseq.github.io/ ; Haas et al, 2013 ). The coral and zooxanthellae transcripts were further differentiated as described previously with minor modifications (Yuan et al, 2017 ). Briefly, the assembled transcripts were aligned to the protein database through BLASTX algorithm ( E < 0.00001), which was constructed using the protein sequences from coral Acropora digitifera and zooxanthellae Symbiodinium minutum and Symbiodinium kawagutii .…”

Section: Methodsmentioning

confidence: 99%

RNA-Seq Reveals Extensive Transcriptional Response to Heat Stress in the Stony Coral Galaxea fascicularis

Hou

et al. 2018

Front. Genet.

Self Cite

View full text Add to dashboard Cite

Galaxea fascicularis, a stony coral belonging to family Oculinidae, is widely distributed in Red Sea, the Gulf of Aden and large areas of the Indo-Pacific oceans. So far there is a lack of gene expression knowledge concerning this massive coral. In the present study, G. fascicularis was subjected to heat stress at 32.0 ± 0.5°C in the lab, we found that the density of symbiotic zooxanthellae decreased significantly; meanwhile apparent bleaching and tissue lysing were observed at 10 h and 18 h after heat stress. The transcriptome responses were investigated in the stony coral G. fascicularis during heat bleaching using RNA-seq. A total of 42,028 coral genes were assembled from over 439 million reads. Gene expressions were compared at 10 and 18 h after heat stress. The significantly upregulated genes found in the Control_10h vs. Heat_10h comparison, presented mainly in GO terms related with DNA integration and unfolded protein response; and for the Control_18h vs. Heat_18h comparison, the GO terms include DNA integration. In addition, comparison between groups of Control_10h vs. Heat_10h and Control_18h vs. Heat_18h revealed that 125 genes were significantly upregulated in common between the two groups, whereas 21 genes were significantly downregulated in common, all these differentially expressed genes were found to be involved in stress response, DNA integration and unfolded protein response. Taken together, our results suggest that high temperature could activate the stress response at the early stage, and subsequently induce the bleaching and lysing through DNA integration and unfolded protein response, which are able to disrupt the balance of coral-zooxanthella symbiosis in the stony coral G. fascicularis.

show abstract

“…The transcriptomes of stony coral P. damicornis were sequenced under elevated ammonium, and 42,399 coral genes were obtained after transcript assembly and differentiation in our previous study (Yuan et al 2017). Likely coding regions of the assembled coral genes were identified, and their encoding proteins were retrieved using the software package TransDecoder (http://transdecoder.…”

Section: Transcriptome Analysismentioning

confidence: 99%

Transcriptome, expression, and activity analyses reveal a vital heat shock protein 70 in the stress response of stony coral Pocillopora damicornis

Zhang

Zhou

Wang

et al. 2018

Cell Stress and Chaperones

Self Cite

View full text Add to dashboard Cite

Coral bleaching occurs worldwide with increasing frequencies and intensities, which is caused by the stress response of stony coral to environmental change, especially increased sea surface temperature. In the present study, transcriptome, expression, and activity analyses were employed to illustrate the underlying molecular mechanisms of heat shock protein 70 (HSP70) in the stress response of coral to environmental changes. The domain analyses of assembled transcripts revealed 30 HSP70 gene contigs in stony coral Pocillopora damicornis. One crucial HSP70 (PdHSP70) was observed, whose expressions were induced by both elevated temperature and ammonium after expression difference analysis. The complete complementary DNA (cDNA) sequence of PdHSP70 was identified, which encoded a polypeptide of 650 amino acids with a molecular weight of 71.93 kDa. The deduced amino acid sequence of PdHSP70 contained a HSP70 domain (from Pro8 to Gly616), and it shared the highest similarity (95%) with HSP70 from Stylophora pistillata. The expression level of PdHSP70 gene increased significantly at 12 h, and returned to the initial level at 24 h after the stress of high temperature (32 °C). The cDNA fragment encoding the mature peptide of PdHSP70 was recombined and expressed in the prokaryotic expression system. The ATPase activity of recombinant PdHSP70 protein was determined, and it did not change significantly in a wide range of temperature from 25 to 40 °C. These results collectively suggested that PdHSP70 was a vital heat shock protein 70 in the stony coral P. damicornis, whose mRNA expression could be induced by diverse environmental stress and whose activity could remain stable under heat stress. PdHSP70 might be involved in the regulation of the bleaching owing to heat stress in the stony coral P. damicornis.

show abstract

Effects of elevated ammonium on the transcriptome of the stony coral Pocillopora damicornis

Cited by 27 publications

References 42 publications

A polyp-on-chip for coral long-term culture

A polyp-on-chip for coral long-term culture

RNA-Seq Reveals Extensive Transcriptional Response to Heat Stress in the Stony Coral Galaxea fascicularis

Transcriptome, expression, and activity analyses reveal a vital heat shock protein 70 in the stress response of stony coral Pocillopora damicornis

Contact Info

Product

Resources

About