Transcriptome Analysis of Tetraploid and Octoploid Common Reed (Phragmites australis).
Transcriptome Analysis of Tetraploid and Octoploid Common Reed (Phragmites australis).
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四倍体和八倍体芦苇（芦苇）的转录组分析
DOI：
10.3389/fpls.2021.653183
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发表时间：
2021
影响因子：
5.6
通讯作者：
Guo W
中科院分区：
文献类型：
--
作者：
Wang C;Wang T;Yin M;Eller F;Liu L;Brix H;Guo W
植物的多倍体化被认为是一种应对环境胁迫的机制。多倍体驱动的适应通常是通过涉及差异表达基因的基因网络的相互作用来实现的，这促使植物进化出特殊的表型性状以生存。芦苇（Phragmites australis）是一个世界性的物种，具有高度变异的表型性状和对各种生境的高适应能力。该物种的倍性水平从3倍到12倍不等，是研究多倍体的分子进化和不同染色体拷贝数介导的基因调控的理想生物。本研究以高通量RNAseq数据为工具，分析了四倍体和八倍体南稻的基因表达谱。估计四倍体和八倍体南方古猿的分化时间是在上新世和更新世之间。与八倍体相比，四倍体中有439个转录本上调，956个转录本下调。基因本体学和途径分析表明，四倍体倾向于表达与生殖和种子萌发有关的基因，以尽早完成繁殖周期，表达与抗UV-B光和真菌有关的基因，而八倍体主要表达与耐热性有关的基因。大多数差异表达基因富集于内质网途径的伴侣蛋白、折叠催化剂和蛋白质加工中。在差异表达基因中检测到相同基因的多重偏置异构体使用，八倍体中上调的基因与DNA甲基化降低有关。本研究为揭示植物多倍体化在环境响应和潜在抗逆性中的作用提供了新的视角。
Polyploidization in plants is thought to have occurred as coping mechanism with environmental stresses. Polyploidization-driven adaptation is often achieved through interplay of gene networks involved in differentially expressed genes, which triggers the plant to evolve special phenotypic traits for survival. Phragmites australis is a cosmopolitan species with highly variable phenotypic traits and high adaptation capacity to various habitats. The species’ ploidy level varies from 3x to 12x, thus it is an ideal organism to investigate the molecular evolution of polyploidy and gene regulation mediated by different numbers of chromosome copies. In this study, we used high-throughput RNAseq data as a tool, to analyze the gene expression profiles in tetraploid and octoploid P. australis. The estimated divergence time between tetraploid and octoploid P. australis was dated to the border between Pliocene and Pleistocene. This study identified 439 up- and 956 down-regulated transcripts in tetraploids compared to octoploids. Gene ontology and pathway analysis revealed that tetraploids tended to express genes responsible for reproduction and seed germination to complete the reproduction cycle early, and expressed genes related to defense against UV-B light and fungi, whereas octoploids expressed mainly genes related to thermotolerance. Most differentially expressed genes were enriched in chaperones, folding catalysts and protein processing in endoplasmic reticulum pathways. Multiple biased isoform usage of the same gene was detected in differentially expressed genes, and the ones upregulated in octoploids were related to reduced DNA methylation. Our study provides new insights into the role of polyploidization on environmental responses and potential stress tolerance in grass species.
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影响因子：
5.6
作者：
Golldack D;Li C;Mohan H;Probst N
通讯作者：
Probst N
影响因子：
3.4
作者：
Brysting, AK;Fay, MF;Aiken, SG
通讯作者：
Aiken, SG
影响因子：
--
作者：
Bartoli, Gretta;Hoenisch, Baerbel;Zeebe, Richard E.
通讯作者：
Zeebe, Richard E.
影响因子：
12.3
作者：
Haas, Brian J.;Salzberg, Steven L.;Zhu, Wei;Pertea, Mihaela;Allen, Jonathan E.;Orvis, Joshua;White, Owen;Buell, C. Robin;Wortman, Jennifer R.
通讯作者：
Wortman, Jennifer R.
影响因子：
2.9
作者：
Achenbach L;Eller F;Nguyen LX;Brix H
通讯作者：
Brix H