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

Content Provider	Springer Nature Link
Author	Ma, Deyou Yang, Hongsheng Sun, Lina Chen, Muyan
Copyright Year	2014
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.
Starting Page	34
Ending Page	46
Page Count	13
File Format	PDF
ISSN	02544059
Journal	Chinese Journal of Oceanology and Limnology
Volume Number	32
Issue Number	1
e-ISSN	19935005
Language	English
Publisher	Springer Berlin Heidelberg
Publisher Date	2014-02-21
Publisher Place	Berlin, Heidelberg
Access Restriction	Subscribed
Subject Keyword	albino gene expression profiling RNA-Seq real-time PCR Apostichopus japonicus Oceanography
Content Type	Text
Resource Type	Article
Subject	Water Science and Technology Oceanography

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Profiling and comparison of color body wall transcriptome of normal juvenile sea cucumber (Apostichopus japonicus) and those produced by crossing albino

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Selection of reference genes for qRT-PCR analysis of gene expression in sea cucumber Apostichopus japonicus during aestivation

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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

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