Liao Xin, Liu Yunqing, Han Tingyu, Yang Mingliu, Liu Wenai, Wang Yadi, He Chunpeng, Lu Zuhong
Guangxi Key Lab of Mangrove Conservation and Utilization, Guangxi Mangrove Research Center, Beihai, China.
State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, Nanjing, China.
Front Physiol. 2022 Apr 20;13:851957. doi: 10.3389/fphys.2022.851957. eCollection 2022.
Mollusca is the second largest animal phylum and represents one of the most evolutionarily successful animal groups. , a species of Corbiculidae, plays an important role in mangrove ecology. It is highly adaptable and can withstand environmental pollution and microbial infections. However, there is no reference genome or full-length transcriptome available for . This impedes the study of the biological functions of its different tissues because transcriptome research requires reference genome or full-length transcriptome as a reference to improve accuracy. In this study, we applied a combination of Illumina and PacBio single-molecule real-time sequencing technologies to sequence the full-length transcriptomes of tissues. Transcriptomes of nine samples obtained from three tissues (hepatopancreas, gill, and muscle) were sequenced using Illumina. Furthermore, we obtained 87,310 full-length reads non-chimeric sequences. After removing redundancy, 22,749 transcripts were obtained. The average Q score of 30 was 94.48%. In total, 271 alternative splicing events were predicted. There were 14,496 complete regions and 3,870 lncRNAs. Differential expression analysis revealed tissue-specific physiological functions. The gills mainly express functions related to filtration, metabolism, identifying pathogens and activating immunity, and neural activity. The hepatopancreas is the main tissue related to metabolism, it also involved in the immune response. The muscle mainly express functions related to muscle movement and control, it contains more energy metabolites that gill and hepatopancreas. Our research provides an important reference for studying the gene expression of under various environmental stresses. Moreover, we present a reliable sequence that will provide an excellent foundation for further research on
软体动物门是第二大动物门，代表了进化上最成功的动物类群之一。蚬科的一种物种在红树林生态中起着重要作用。它具有高度的适应性，能够承受环境污染和微生物感染。然而，目前尚无该物种的参考基因组或全长转录组。这阻碍了对其不同组织生物学功能的研究，因为转录组研究需要参考基因组或全长转录组作为参照以提高准确性。在本研究中，我们应用Illumina和PacBio单分子实时测序技术相结合的方法对该物种组织的全长转录组进行测序。使用Illumina对从三个组织（肝胰腺、鳃和肌肉）获得的九个样本的转录组进行了测序。此外，我们获得了87310条全长非嵌合序列。去除冗余后，得到22749条转录本。平均Q值为30，占比94.48%。总共预测到271个可变剪接事件。有14496个完整区域和3870个长链非编码RNA。差异表达分析揭示了组织特异性的生理功能。鳃主要表达与过滤、代谢、识别病原体和激活免疫以及神经活动相关的功能。肝胰腺是与代谢相关的主要组织，它也参与免疫反应。肌肉主要表达与肌肉运动和控制相关的功能，它含有比鳃和肝胰腺更多的能量代谢物。我们的研究为研究该物种在各种环境胁迫下的基因表达提供了重要参考。此外，我们提供了一个可靠的序列，这将为进一步研究奠定良好基础。
