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KMID : 0381120200420020189
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Genes and Genomics
2020 Volume.42 No. 2 p.189 ~ p.202
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De novo transcriptome analysis of stressed blood clam (Anadara broughtonii) and identification of genes associated with hemoglobin
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Wang Yihang
Zhou Shanshan
Liu Tianyu
Chen Muyan
Zhang Xiumei
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Abstract
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Background: Blood clam (Anadara broughtonii) is a commercially important marine bivalve characterised by the red blood. Recently, the clams have been subjected to severe resource recession. Multiple environmental stressors are indispensable for the recession.
Objective: We aimed to investigate the transcriptome information of blood clam under environmental stressors.
Methods: Paired-end Illumina HiSeq™ 2500 sequencing technology was employed for cDNA library construction and Illumina sequencing. Several public databases were introduced for gene annotation, and Kyoto Encyclopedia of Genes and Genomes (KEGG) database was used for pathways analyses. The Open Reading Frame of annotated hemoglobin (Hb) was predicted and validated by DNAMAN 6.0 and NCBI BLASTx, respectively.
Results: A total of 242,919 transcripts were generated, 116,264 unigenes were subsequently assembled with an average length of 747 base pairs, and 33,776 unigenes were successfully annotated. Gene Ontology (GO) categories indicated that the terms of cellular processes, metabolic processes, cell, cell part, binding, and catalytic activity were dominant. KEGG pathway analyses suggested ribosome, oxytocin, focal adhesion, Ras, and PI3K-Akt were the largest signaling pathway groups, and many presented pathways (Ras, Rap1, and MAPK, etc.) were related to apoptosis, immune and stress response. In addition, a total of 19,306 potential simple sequence repeats (SSRs) were detected in 15,852 sequences. Six hemoglobin-related genes with complete conserved domain sequences were identified and 3 of them were predicted as HbI, HbIIα, and HbIIβ.
Conclusion: This study provides transcriptome responses to multiple environmental stressors in blood clams and would provide interesting hints for further studies.
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KEYWORD
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Transcriptome, Paired-end Illumina sequencing, Anadara Broughtonii, Non-model organism, Hemoglobin
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