Dataset Information

Transcriptional Identification of Related Proteins in the Immune System of the Crayfish Procambarus clarkii.

ABSTRACT: The freshwater crayfish Procambarus clarkii is an animal model employed for physiological and immunological studies and is also of great economic importance in aquaculture. Although it is a species of easy husbandry, a high percentage of its production is lost annually as a result of infectious diseases. Currently, genetic information about the immune system of crustaceans is limited. Therefore, we used the abdominal nerve cord from P. clarkii to obtain its transcriptome using Next Generation Sequencing (NGS) to identify proteins that participate in the immune system. The reads were assembled de novo and consensus sequences with more than 3000 nucleotides were selected for analysis. The transcripts of the sequences of RNA were edited for annotation and sent to the GenBank database of the National Center for Biotechnology Information (NCBI). We made a list of accession numbers of the sequences which were organized by the putative role of the immune system pathway in which they participate. In this work, we report on 80 proteins identified from the transcriptome of crayfish related to the immune system, 74 of them being the first reported for P. clarkii. We hope that the knowledge of these sequences will contribute significantly to the development of future studies of the immune system in crustaceans.

SUBMITTER: Calderon-Rosete G

PROVIDER: S-EPMC6165390 | biostudies-literature | 2018 Sep

REPOSITORIES: biostudies-literature

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Transcriptional Identification of Related Proteins in the Immune System of the Crayfish Procambarus clarkii.

Calderón-Rosete Gabina G González-Barrios Juan Antonio JA Lara-Lozano Manuel M Piña-Leyva Celia C Rodríguez-Sosa Leonardo L

High-throughput 20180912 3

The freshwater crayfish Procambarus clarkii is an animal model employed for physiological and immunological studies and is also of great economic importance in aquaculture. Although it is a species of easy husbandry, a high percentage of its production is lost annually as a result of infectious diseases. Currently, genetic information about the immune system of crustaceans is limited. Therefore, we used the abdominal nerve cord from P. clarkii to obtain its transcriptome using Next ...[more]

PMID: 30213058

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Project description:The red swamp crayfish Procambarus clarkii is a highly adaptable, tolerant, and fecund freshwater crayfish that inhabits a wide range of aquatic environments. It is an important crustacean model organism that is used in many research fields, including animal behavior, environmental stress and toxicity, and studies of viral infection. Despite its widespread use, knowledge of the crayfish genome is very limited and insufficient for meaningful research. This is the use of next-generation sequencing techniques to analyze the crayfish transcriptome. A total of 324.97 million raw reads of 100 base pairs were generated, and a total of 88,463 transcripts were assembled de novo using Trinity software, producing 55,278 non-redundant transcripts. Comparison of digital gene expression between four different tissues revealed differentially expressed genes, in which more overexpressed genes were found in the hepatopancreas than in other tissues, and more underexpressed genes were found in the testis and the ovary than in other tissues. Gene ontology (GO) and KEGG enrichment analysis of differentially expressed genes revealed that metabolite- and immune-related pathway genes were enriched in the hepatopancreas, and DNA replication-related pathway genes were enriched in the ovary and the testis, which is consistent with the important role of the hepatopancreas in metabolism, immunity, and the stress response, and with that of the ovary and the testis in reproduction. It was also found that 14 vitellogenin transcripts were highly expressed specifically in the hepatopancreas, and 6 transcripts were highly expressed specifically in the ovary, but no vitellogenin transcripts were highly expressed in both the hepatopancreas and the ovary. These results provide new insight into the role of vitellogenin in crustaceans. In addition, 243,764 SNP sites and 43,205 microsatellite sequences were identified in the sequencing data. We believe that our results provide an important genome resource for the crayfish.

Dataset Information

Transcriptional Identification of Related Proteins in the Immune System of the Crayfish Procambarus clarkii.

Publications

Transcriptional Identification of Related Proteins in the Immune System of the Crayfish <i>Procambarus clarkii</i>.

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