Comparative Genomic and Transcriptomic Analysis Reveals Specific Features of Gene Regulation in Kluyveromyces marxianus.
Comparative Genomic and Transcriptomic Analysis Reveals Specific Features of Gene Regulation in Kluyveromyces marxianus.
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比较基因组和转录组分析揭示马克斯克鲁维酵母基因调控的具体特征
DOI：
10.3389/fmicb.2021.598060
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发表时间：
2021
影响因子：
5.2
通讯作者：
Lu H
中科院分区：
文献类型：
--
作者：
Yu Y;Mo W;Ren H;Yang X;Lu W;Luo T;Zeng J;Zhou J;Qi J;Lu H
马克斯克鲁维酵母是一种很有前途的生产生物乙醇和异源蛋白的宿主。它显示出许多优于传统工业酵母菌种酿酒酵母的上级特性，包括快速生长、耐热性和同化更广泛种类的糖的能力。然而，对K.马克思主义。在这项研究中，我们进行了比较基因组分析K。marxianus和其他真菌科物种。与絮凝、铁转运和生物素生物合成有关的基因在K.马克思主义。此外，60K。结果表明，在富营养化培养过程中，45%的Marxianus特异性基因表达上调，这些基因可能参与葡萄糖转运和葡萄糖转运相关功能。此外，转录组学分析表明，在有氧条件下，K中参与滞后期三羧酸循环、呼吸链和ATP生物合成的基因的标准化水平较高。marxianus的结果比S.啤酒。高拷贝基因的水平，参与呼吸链和呼吸链组装的基因，在K。marxianus，而不是S.酿酒酵母，在培养过程中的较晚的时间点相比，在滞后期。值得注意的是，在快速生长期，参与呼吸链，ATP合成和葡萄糖转运的基因在K。马克思主义。相关基因上游序列中的一些共同基序可能导致共上调。在基因表达的协同调节中的特定特征可能有助于K的快速生长表型。马克思主义。我们的研究强调了在进化过程中转录网络的全基因组重新布线的重要性。
Kluyveromyces marxianus is a promising host for producing bioethanol and heterologous proteins. It displays many superior traits to a conventional industrial yeast species, Saccharomyces cerevisiae, including fast growth, thermotolerance and the capacity to assimilate a wider variety of sugars. However, little is known about the mechanisms underlying the fast-growing feature of K. marxianus. In this study, we performed a comparative genomic analysis between K. marxianus and other Saccharomycetaceae species. Genes involved in flocculation, iron transport, and biotin biosynthesis have particularly high copies in K. marxianus. In addition, 60 K. marxianus specific genes were identified, 45% of which were upregulated during cultivation in rich medium and these genes may participate in glucose transport and mitochondrion related functions. Furthermore, the transcriptomic analysis revealed that under aerobic condition, normalized levels of genes participating in TCA cycles, respiration chain and ATP biosynthesis in the lag phase were higher in K. marxianus than those in S. cerevisiae. Levels of highly copied genes, genes involved in the respiratory chain and mitochondrion assembly, were upregulated in K. marxianus, but not in S. cerevisiae, in later time points during cultivation compared with those in the lag phase. Notably, during the fast-growing phase, genes involved in the respiratory chain, ATP synthesis and glucose transport were co-upregulated in K. marxianus. A few shared motifs in upstream sequences of relevant genes might result in the co-upregulation. Specific features in the co-regulations of gene expressions might contribute to the fast-growing phenotype of K. marxianus. Our study underscores the importance of genome-wide rewiring of the transcriptional network during evolution.
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影响因子：
6
作者：
Lane, Melanie M.;Morrissey, John P.
通讯作者：
Morrissey, John P.
影响因子：
3.2
作者：
Nielsen, Jens;Jewett, Michael C.
通讯作者：
Jewett, Michael C.
模因套件：用于发现和搜索的工具。
影响因子：
14.9
作者：
Bailey TL;Boden M;Buske FA;Frith M;Grant CE;Clementi L;Ren J;Li WW;Noble WS
通讯作者：
Noble WS
DOI：
10.1093/bioinformatics/btp348
发表时间：
2009-08-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Capella-Gutiérrez S;Silla-Martínez JM;Gabaldón T
通讯作者：
Gabaldón T
DOI：
10.1128/genomea.00389-15
发表时间：
2015-04-23
期刊：
Genome announcements
影响因子：
--
作者：
Inokuma K;Ishii J;Hara KY;Mochizuki M;Hasunuma T;Kondo A
通讯作者：
Kondo A