Genome-wide identification, characterization and expression analysis of lineage-specific genes within Hanseniaspora yeasts
Genome-wide identification, characterization and expression analysis of lineage-specific genes within Hanseniaspora yeasts
复制标题
汉逊酵母中谱系特异性基因的全基因组鉴定、表征和表达分析
DOI：
10.1093/femsle/fnaa077
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发表时间：
2020-06-01
影响因子：
2.1
通讯作者：
Long, Chao-An
中科院分区：
文献类型：
--
作者：
Chen, Kai;Tian, Zhonghuan;Long, Chao-An
谱系特异性基因（LSGs）是指序列与其他谱系基因不显著相似的基因。LSGs已经被提出，有时被证明在生物功能的进化中具有显着的影响。在这项研究中，两套Hanseniaspora spp。通过比较Kioeckera apiculata基因组和80种其他酵母基因组的序列来鉴定LSG。本研究鉴定了344个汉逊囊菌特异基因（HSG）和109个汉逊囊菌特异基因（“孤儿基因”）。有尖的。三千三百三十一K与Hanseniaspora外的至少一个序列显示出显著相似性的apiculata基因被归类为进化保守基因。分析了它们的序列特征、功能分类、基因来源、基因结构和基因表达。我们还研究了预测的细胞角色和基因本体论类别的LSGs使用功能推理。LSGs的功能模式与全基因组平均值没有显著差异。结果表明，少数LSG是由基因重复形成的，随后是快速的序列分化。许多HSG和孤儿基因在非生物胁迫下表现出表达改变。对这些LSG的研究有助于了解酵母适应的分子机制。
Lineage-specific genes (LSGs) are defined as genes with sequences that are not significantly similar to those in any other lineage. LSGs have been proposed, and sometimes shown, to have significant effects in the evolution of biological function. In this study, two sets of Hanseniaspora spp. LSGs were identified by comparing the sequences of the Kioeckera apiculata genome and of 80 other yeast genomes. This study identified 344 Hanseniaspora-specific genes (HSGs) and 109 genes ('orphan genes') specific to K. apiculata. Three thousand three hundred thirty-one K. apiculata genes that showed significant similarity to at least one sequence outside the Hanseniaspora were classified into evolutionarily conserved genes. We analyzed their sequence features, functional categories, gene origin, gene structure and gene expression. We also investigated the predicted cellular roles and Gene Ontology categories of the LSGs using functional inference. The patterns of the functions of LSGs do not deviate significantly from genome-wide average. The results showed that a few LSGs were formed by gene duplication, followed by rapid sequence divergence. Many of the HSGs and orphan genes exhibited altered expression in response to abiotic stress. Studying these LSGs might be helpful for understanding the molecular mechanism of yeast adaption.