Transcriptome sequencing of the naked mole rat (Heterocephalus glaber) and identification of hypoxia tolerance genes.
Transcriptome sequencing of the naked mole rat (Heterocephalus glaber) and identification of hypoxia tolerance genes.
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裸鼹鼠（Heterocephalus glaber）转录组测序及耐缺氧基因鉴定
DOI：
10.1242/bio.028548
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发表时间：
2017-12-15
期刊：
影响因子：
2.4
通讯作者：
Cui S
中科院分区：
文献类型：
--
作者：
Xiao B;Li L;Xu C;Zhao S;Lin L;Cheng J;Yang W;Cong W;Kan G;Cui S
裸鼹鼠（NMR; Heterocephalus glaber）是一种小型啮齿动物，分布于肯尼亚、埃塞俄比亚和索马里。它对缺氧具有很高的耐受性，因此被认为是研究缺氧耐受机制的最重要的天然模型之一。NMR耐缺氧的各种机制开始在不同的组织水平上得到理解，下一代测序方法有望将这种理解扩展到基因表达水平。在这项研究中，我们使用Illumina HiSeq 2500系统检查了暴露于缺氧的NMR的肌肉转录组的序列和转录丰度数据，以澄清可能的基因组对缺氧地下环境的适应性反应。将RNA-seq原始FastQ数据映射到NMR基因组。通过比较缺氧组和对照组，我们确定了2337个差异表达基因（DEG）。通过基因本体（GO）分析对DEG的功能注释揭示了低氧应激相关GO类别的丰富，包括“生物调节”、“细胞过程”、“离子转运”和“细胞-细胞信号传导”。针对京都基因和基因组百科全书（KEGG）数据库分析信号传导途径中DEG的富集以鉴定DEG之间可能的相互作用。结果显示，DEGs在粘着斑、丝裂原活化蛋白激酶（MAPK）信号通路和甘氨酸、丝氨酸和苏氨酸代谢通路中显著富集。此外，DEG（STMN 1，MAPK 8IP 1和MAPK 10）表达的抑制诱导细胞凋亡和逮捕细胞生长的NMR成纤维细胞缺氧后。因此，这种全局转录组分析的NMR可以提供一个重要的遗传资源，在哺乳动物的耐缺氧的研究。此外，DEG的鉴定可能为中风和心血管疾病的治疗策略的生物医学研究提供重要的分子靶点。总结：这些差异表达基因为进一步研究哺乳动物耐缺氧性和缺血性疾病的分子靶点提供了重要的遗传资源。这篇文章有一个相关的第一人称采访的第一作者的文件作为补充信息的一部分。
ABSTRACT The naked mole rat (NMR; Heterocephalus glaber) is a small rodent species found in regions of Kenya, Ethiopia and Somalia. It has a high tolerance for hypoxia and is thus considered one of the most important natural models for studying hypoxia tolerance mechanisms. The various mechanisms underlying the NMR's hypoxia tolerance are beginning to be understood at different levels of organization, and next-generation sequencing methods promise to expand this understanding to the level of gene expression. In this study, we examined the sequence and transcript abundance data of the muscle transcriptome of NMRs exposed to hypoxia using the Illumina HiSeq 2500 system to clarify the possible genomic adaptive responses to the hypoxic underground surroundings. The RNA-seq raw FastQ data were mapped against the NMR genome. We identified 2337 differentially expressed genes (DEGs) by comparison of the hypoxic and control groups. Functional annotation of the DEGs by gene ontology (GO) analysis revealed enrichment of hypoxia stress-related GO categories, including ‘biological regulation’, ‘cellular process’, ‘ion transport’ and ‘cell-cell signaling’. Enrichment of DEGs in signaling pathways was analyzed against the Kyoto Encyclopedia of Genes and Genomes (KEGG) database to identify possible interactions between DEGs. The results revealed significant enrichment of DEGs in focal adhesion, the mitogen-activated protein kinase (MAPK) signaling pathway and the glycine, serine and threonine metabolism pathway. Furthermore, inhibition of DEGs (STMN1, MAPK8IP1 and MAPK10) expression induced apoptosis and arrested cell growth in NMR fibroblasts following hypoxia. Thus, this global transcriptome analysis of NMRs can provide an important genetic resource for the study of hypoxia tolerance in mammals. Furthermore, the identified DEGs may provide important molecular targets for biomedical research into therapeutic strategies for stroke and cardiovascular diseases. Summary: The identified differentially expressed genes in naked mole rat exposed to hypoxia may provide an important genetic resource for further analyses of mammalian tolerance to hypoxia and molecular targets for the prevention of ischemic diseases. This article has an associated First Person interview with the first author of the paper as part of the supplementary information.
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JNK在肥胖，胰岛素抵抗和细胞应激反应的十字路口处。
影响因子：
8.1
作者：
Solinas G;Becattini B
通讯作者：
Becattini B
影响因子：
2.9
作者：
Mira, Mohamed M.;El-Khateeb, Eman A.;Stasolla, Claudio
通讯作者：
Stasolla, Claudio
影响因子：
3.7
作者：
Herculano-Houzel S
通讯作者：
Herculano-Houzel S
DOI：
10.1007/s00335-016-9648-5
发表时间：
2016-08
期刊：
Mammalian genome : official journal of the International Mammalian Genome Society
影响因子：
--
作者：
Lewis KN;Soifer I;Melamud E;Roy M;McIsaac RS;Hibbs M;Buffenstein R
通讯作者：
Buffenstein R
影响因子：
3.7
作者：
Vaishnav M;MacFarlane M;Dickens M
通讯作者：
Dickens M