Magnitude of modulation of gene expression in aneuploid maize depends on the extent of genomic imbalance
Magnitude of modulation of gene expression in aneuploid maize depends on the extent of genomic imbalance
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DOI：
10.1016/j.jgg.2020.02.002
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发表时间：
2020-02-20
影响因子：
5.9
通讯作者：
Birchler, James A.
中科院分区：
文献类型：
--
作者：
Johnson, Adam F.;Hou, Jie;Birchler, James A.
非整倍体对生物体有深远的影响，通常比多倍体更有影响，这种对比的基础还没有完全被理解。利用玉米1号染色体长臂(1L)的剂量序列来比较不同类型和程度的非整倍体中的相对整体基因表达，以了解基因组不平衡的程度以及亚倍体如何影响整体基因表达。虽然以前可用的方法需要对特定基因进行选择性检查，但RNA测序提供了非整倍体基因表达的全基因组视图。大多数关于全球非整倍体效应的研究都集中在个别类型的非整倍体上，因为在大多数模式遗传生物中很难产生同一基因组区域的多剂量非整倍体。玉米的遗传工具箱允许检查多倍体和1-4剂量的染色体臂。因此，与整倍体对照相比，在亚倍体和超倍体中，详细检查不同染色体臂和基因组其他部分的表达变化是可能的。以前的研究观察到了相反的反式效应，即DNA剂量不变的基因与不同的染色体区域呈负相关。这种反应也是这项研究中发现的全球变化的主要类型。许多不同剂量的基因表现出成比例的表达变化，尽管有些基因被认为是部分或完全的剂量补偿。研究还发现，非整倍体的影响是渐进的，非整倍体越严重，产生的影响就越大。版权所有(C)2020，中国科学院遗传与发育生物学研究所，中国遗传学会。爱思唯尔有限公司和科学出版社出版。版权所有。
Aneuploidy has profound effects on an organism, typically more so than polyploidy, and the basis of this contrast is not fully understood. A dosage series of the maize long arm of chromosome 1 (1L) was used to compare relative global gene expression in different types and degrees of aneuploidy to gain insights into how the magnitude of genomic imbalance as well as hypoploidy affects global gene expression. While previously available methods require a selective examination of specific genes, RNA sequencing provides a whole-genome view of gene expression in aneuploids. Most studies of global aneuploidy effects have concentrated on individual types of aneuploids because multiple dose aneuploidies of the same genomic region are difficult to produce in most model genetic organisms. The genetic toolkit of maize allows the examination of multiple ploidies and 1-4 doses of chromosome arms. Thus, a detailed examination of expression changes both on the varied chromosome arms and elsewhere in the genome is possible, in both hypoploids and hyperploids, compared with euploid controls. Previous studies observed the inverse trans effect, in which genes not varied in DNA dosage were expressed in a negative relationship to the varied chromosomal region. This response was also the major type of changes found globally in this study. Many genes varied in dosage showed proportional expression changes, though some were seen to be partly or fully dosage compensated. It was also found that the effects of aneuploidy were progressive, with more severe aneuploids producing effects of greater magnitude. Copyright (C) 2020, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, and Genetics Society of China. Published by Elsevier Limited and Science Press. All rights reserved.