Conservation and host-specific expression of non-tandemly repeated heterogenous ribosome RNA gene in arbuscular mycorrhizal fungi
Conservation and host-specific expression of non-tandemly repeated heterogenous ribosome RNA gene in arbuscular mycorrhizal fungi
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丛枝菌根真菌中非串联重复异源核糖体RNA基因的保守性和宿主特异性表达
DOI：
10.1101/2020.05.14.095489
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发表时间：
2020
期刊：
影响因子：
--
通讯作者：
Kawaguchi Masayoshi
中科院分区：
文献类型：
--
作者：
Maeda Taro;Kobayashi Yuuki;Nakagawa Tomomi;Ezawa Tatsuhiro;Yamaguchi Katsushi;Bino Takahiro;Nishimoto Yuki;Shigenobu Shuji;Kawaguchi Masayoshi
核糖体RNA编码基因（rDNA）具有独特的基因组性质：基因组中有数万至数千个拷贝，串联重复结构和基因组内序列同质性。这些特征有助于通过生理和进化过程的核糖体生产力。我们曾报道过在模式真菌Rhizophagus irregularis中这些特征的异常缺失，本文通过改进Rhizophagus irregularis的基因组序列，研究了这些异常rDNA特征在Rhizophagus属中的系统发育分布。种间比较结果表明，它们的rDNA不仅在基因组特征上具有相似性，而且在旁系同源物上基因组内多态性位点的分布上也具有相似性。核糖体RNA包含具有不同功能的多个结构域。这两种噬根菌普遍存在一个变异富集位点ES27L，该位点与翻译保真度和抗生素敏感性有关。在其他缺乏这三个rDNA特征的生物体中，如疟原虫和霜霉病菌，没有观察到ES27L的变异富集。不规则显示rDNA旁系同源物在与宿主植物物种相关的不同表达。我们的研究结果表明，广泛的分布在AM真菌和其参与的成功协会与广泛的宿主物种的无序rDNA。
The ribosomal RNA-encoding gene (rDNA) has a characteristic genomic nature: tens to thousands of copies in a genome, tandemly repeated structure, and intragenomic sequence homogeneity. These features contribute to ribosome productivity via physiological and evolutionary processes. We reported previously the exceptional absence of these features in the model arbuscular mycorrhizal (AM) fungusRhizophagus irregularis.Here we examine the phylogenetic distribution of the exceptional rDNA features in the genusRhizophagusvia improving the genome sequence ofR. clarus.Cross-species comparison indicated similarity of their rDNAs not only in the genomic features but also in the distribution of intragenomic polymorphic sites on the paralogs. Ribosomal RNA comprises multiple domains with different functions. The twoRhizophagusspecies commonly exhibited a variation enrichment site, ES27L, which is related to translational fidelity and antibiotic sensitivity. Variation enrichment on ES27L has not been observed in other organisms lacking the three rDNA features such as malaria parasites andCyanidioschyzon merolae.Expression profiling of rDNAs inR. irregularisrevealed that rDNA paralogs are expressed differently in association with host plant species. Our results suggest a broad distribution of the disarranged rDNA across AM fungi and its involvement in the successful association with the broad range of host species.
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影响因子：
3.7
作者：
Walker BJ;Abeel T;Shea T;Priest M;Abouelliel A;Sakthikumar S;Cuomo CA;Zeng Q;Wortman J;Young SK;Earl AM
通讯作者：
Earl AM
DOI：
10.1093/bioinformatics/bts565
发表时间：
2012-12-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Fu L;Niu B;Zhu Z;Wu S;Li W
通讯作者：
Li W
丛枝菌根真菌的高分辨率群落分析。
影响因子：
9.4
作者：
Klaus Schlaeppi;S. Bender;F. Mascher;G. Russo;A. Patrignani;Tessa Camenzind;Stefan Hempel;M. Rillig;M. G. Heijden;M. G. Heijden
通讯作者：
M. G. Heijden
影响因子：
16
作者：
Genuth NR;Barna M
通讯作者：
Barna M
影响因子：
10.7
作者：
Katoh K;Standley DM
通讯作者：
Standley DM