Transcription profiling using RNA-Seq demonstrates expression differences in the body walls of juvenile albino and normal sea cucumbers Apostichopus japonicus

Deyou Ma; Hongsheng Yang; Lina Sun; Muyan Chen

doi:10.1007/s00343-014-3041-6

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Transcription profiling using RNA-Seq demonstrates expression differences in the body walls of juvenile albino and normal sea cucumbers Apostichopus japonicus

Updated：2023-05-16

- Transcription profiling using RNA-Seq demonstrates expression differences in the body walls of juvenile albino and normal sea cucumbers Apostichopus japonicus
- Journal of Oceanology and Limnology Vol. 32, Issue 1, Pages: 34-46(2014)
- Affiliations：
  
  1. Key Laboratory of Marine Ecology and Environmental Sciences Institute of Oceanology Chinese Academy of Sciences
  2. University of Chinese Academy of Sciences
  3. Ocean University of China
- Author bio：
- Funds：
- DOI：10.1007/s00343-014-3041-6
  CLC：
- Online First：21 February 2014，
  
  Published：2014
- Accepted：
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Ma, D., Yang, H., Sun, L. et al. Transcription profiling using RNA-Seq demonstrates expression differences in the body walls of juvenile albino and normal sea cucumbers Apostichopus japonicus, ., Chin. J. Ocean. Limnol. 32, 34–46 (2014). https://doi.org/10.1007/s00343-014-3041-6
DOI：

Ma, D., Yang, H., Sun, L. et al. Transcription profiling using RNA-Seq demonstrates expression differences in the body walls of juvenile albino and normal sea cucumbers Apostichopus japonicus, ., Chin. J. Ocean. Limnol. 32, 34–46 (2014). https://doi.org/10.1007/s00343-014-3041-6 DOI：

摘要

Abstract

Sea cucumbers Apostichopus japonicus are one of the most important aquaculture species in China. Their normal body color is black to fit their surroundings. Wild albinos are rare and hard to breed. To understand the differences between albino and normal (control) sea cucumbers at the transcriptional level

we sequenced the transcriptomes in their body-wall tissues using RNA-Seq high-throughput sequencing. Approximately 4.876 million (M) and 4.884 M 200-nucleotide-long cDNA reads were produced in the cDNA libraries derived from the body walls of albino and control samples

respectively. A total of 9 561 (46.89%) putative genes were identified from among the RNA-Seq reads in both libraries. After filtering

837 significantly differentially regulated genes were identified in the albino library compared with in the control library

and 3.6% of the differentially expressed genes (DEGs) were found to have changed those more than five-fold. The expression levels of 10 DEGs were checked by real-time PCR and the results were in full accord with the RNA-Seq expression trends

although the amplitude of the differences in expression levels was lower in all cases. A series of pathways were significantly enriched for the DEGs. These pathways were closely related to phagocytosis

the complement and coagulation cascades

apoptosis-related diseases

cytokine-cytokine receptor interaction

and cell adhesion. The differences in gene expression and enriched pathways between the albino and control sea cucumbers offer control targets for cultivating excellent albino A. japonicus strains in the future.

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Keywords

references

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