Annotation of nerve cord transcriptome in earthworm Eisenia fetida
| Autor: | Paulkumar Kanniah, Vasanthakumar Ponesakki, Veeraragavan Rajendiran, Dinesh Kumar Sudalai Mani, Sayan Paul, Sudhakar Sivasubramaniam |
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| Jazyk: | angličtina |
| Rok vydání: | 2017 |
| Předmět: |
0301 basic medicine
Nervous system lcsh:QH426-470 Annotation Eisenia fetida Computational biology Biology Bioinformatics Stem cell marker Biochemistry Genome Transcriptome 03 medical and health sciences Nerve cord 0302 clinical medicine Genetics medicine Epigenetics KEGG Gene Contig lcsh:Genetics 030104 developmental biology medicine.anatomical_structure Molecular Medicine 030217 neurology & neurosurgery Biotechnology |
| Zdroj: | Genomics Data, Vol 14, Iss C, Pp 91-105 (2017) |
| ISSN: | 2213-5960 |
| Popis: | In annelid worms, the nerve cord serves as a crucial organ to control the sensory and behavioral physiology. The inadequate genome resource of earthworms has prioritized the comprehensive analysis of their transcriptome dataset to monitor the genes express in the nerve cord and predict their role in the neurotransmission and sensory perception of the species. The present study focuses on identifying the potential transcripts and predicting their functional features by annotating the transcriptome dataset of nerve cord tissues prepared by Gong et al., 2010 from the earthworm Eisenia fetida. Totally 9762 transcripts were successfully annotated against the NCBI nr database using the BLASTX algorithm and among them 7680 transcripts were assigned to a total of 44,354 GO terms. The conserve domain analysis indicated the over representation of P-loop NTPase domain and calcium binding EF-hand domain. The COG functional annotation classified 5860 transcript sequences into 25 functional categories. Further, 4502 contig sequences were found to map with 124 KEGG pathways. The annotated contig dataset exhibited 22 crucial neuropeptides having considerable matches to the marine annelid Platynereis dumerilii, suggesting their possible role in neurotransmission and neuromodulation. In addition, 108 human stem cell marker homologs were identified including the crucial epigenetic regulators, transcriptional repressors and cell cycle regulators, which may contribute to the neuronal and segmental regeneration. The complete functional annotation of this nerve cord transcriptome can be further utilized to interpret genetic and molecular mechanisms associated with neuronal development, nervous system regeneration and nerve cord function. |
| Databáze: | OpenAIRE |
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