The plant genome. 2024 Dec 8:e20535. doi: 10.1002/tpg2.20535 Q13.82025

Brassica Panache: A multi-species graph pangenome representing presence absence variation across forty-one Brassica genomes

芸苔炫彩：包含41个芸苔种基因组的物种群图泛基因组，用于表示存在与否变异翻译改进

Tessa R MacNish^{1 2}, Hawlader A Al-Mamun^{1 2}, Philipp E Bayer^{1 2 3}, Connor McPhan^{1 2}, Cassandria G Tay Fernandez^{1 2}, Shriprabha R Upadhyaya^{1 2}, Shengyi Liu⁴, Jacqueline Batley¹, Isobel A P Parkin⁵, Andrew G Sharpe⁶, David Edwards^{1 2}

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作者单位

¹ School of Biological Sciences, The University of Western Australia, Perth, Western Australia, Australia.

² Center for Applied Bioinformatics, The University of Western Australia, Perth, Western Australia, Australia.

³ Minderoo Foundation, Perth, Western Australia, Australia.

⁴ Oil Crops Research Institute, CAAS, Wuhan, China.

⁵ Agriculture and Agri-Food Canada, Saskatoon, Saskatchewan, Canada.

⁶ Global Institute for Food Security, Saskatoon, Saskatchewan, Canada.

DOI: 10.1002/tpg2.20535 PMID: 39648684

摘要中英对照阅读

Brassicas are an economically important crop species that provide a source of healthy oil and vegetables. With the rising population and the impact of climate change on agriculture, there is an increasing need to improve agronomically important traits of crops such as Brassica. The genomes of plant species have significant sequence presence absence variation (PAV), which is a source of genetic variation that can be used for crop improvement, and this speci... ...点击完成人机验证后继续浏览

芥菜属是一种经济上重要的作物，提供了健康的油类和蔬菜来源。随着人口的增加以及气候变化对农业的影响，有必要改进像芥菜属这样的农作物的重要农艺性状。植物物种基因组中存在显著的序列存在缺失变异（PAV），这是一种可用于作物改良的遗传变异来源，并且可以通过构建泛基因组来捕捉这种物种间的变异。图泛基因组是一种最近出现的参考格式，它通过序列图中的替代路径表示一个物种或群体内的基因组变异。图泛基因组包含有关比对、PAV和注释的信息。在这里，我们使用具有染色体探索功能的泛基因组图分析工具（Panache）首次展示了芥菜属多物种图泛基因组。

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期刊名：Plant genome

缩写：PLANT GENOME-US

ISSN：N/A

e-ISSN：1940-3372

IF/分区：3.8/Q1

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Brassica Panache: A multi-species graph pangenome representing presence absence variation across forty-one Brassica genomes

芸苔炫彩：包含41个芸苔种基因组的物种群图泛基因组，用于表示存在与否变异翻译改进

Wheat Panache: A pangenome graph database representing presence-absence variation across sixteen bread wheat genomes

小麦品种系列：包含16个面包小麦基因组的基因组图谱数据库表示存在-缺失变异

Highly contiguous genomes of human clinical isolates of Giardia duodenalis reveal assemblage- and sub-assemblage-specific presence-absence variation in protein-coding genes

高连续性的肠孢虫临床分离株基因组显示了装配体和亚装配体中蛋白质编码基因的存在-缺失变异

Homoeologous exchange is a major cause of gene presence/absence variation in the amphidiploid Brassica napus

亚倍体油菜中同起源同源交换是基因缺失变异的主要原因

Combining 47 human genomes into a single pangenome

整合47个人类基因组构建单个泛基因组

Megabase-scale presence-absence variation with Tripsacum origin was under selection during maize domestication and adaptation

草地茅属引入的大型存在-缺失变异在玉米驯化和改良过程中受到选择

Genome-wide presence/absence variation discovery and its application in Peach (Prunus persica)

基于全基因组的检测基因存在和缺失及其在桃(Persica杏属)中的应用

Pan-genome of Citrullus genus highlights the extent of presence/absence variation during domestication and selection

葫芦属植物基因组泛基因组研究揭示了驯化过程中基因的缺失与选择性变异程度

Gene presence/absence variation in Mytilus galloprovincialis and its implications in gene expression and adaptation

贻贝(Mytilus galloprovincialis)基因存在与缺失变异及其在基因表达和适应中的作用研究

Brassica Panache: A multi-species graph pangenome representing presence absence variation across forty-one Brassica genomes

芸苔炫彩：包含41个芸苔种基因组的物种群图泛基因组，用于表示存在与否变异 翻译改进

Wheat Panache: A pangenome graph database representing presence-absence variation across sixteen bread wheat genomes

小麦品种系列：包含16个面包小麦基因组的基因组图谱数据库表示存在-缺失变异

Highly contiguous genomes of human clinical isolates of Giardia duodenalis reveal assemblage- and sub-assemblage-specific presence-absence variation in protein-coding genes

高连续性的肠孢虫临床分离株基因组显示了装配体和亚装配体中蛋白质编码基因的存在-缺失变异

Homoeologous exchange is a major cause of gene presence/absence variation in the amphidiploid Brassica napus

亚倍体油菜中同起源同源交换是基因缺失变异的主要原因

Combining 47 human genomes into a single pangenome

整合47个人类基因组构建单个泛基因组

Megabase-scale presence-absence variation with Tripsacum origin was under selection during maize domestication and adaptation

草地茅属引入的大型存在-缺失变异在玉米驯化和改良过程中受到选择

Genome-wide presence/absence variation discovery and its application in Peach (Prunus persica)

基于全基因组的检测基因存在和缺失及其在桃(Persica杏属)中的应用

Pan-genome of Citrullus genus highlights the extent of presence/absence variation during domestication and selection

葫芦属植物基因组泛基因组研究揭示了驯化过程中基因的缺失与选择性变异程度

Gene presence/absence variation in Mytilus galloprovincialis and its implications in gene expression and adaptation

贻贝(Mytilus galloprovincialis)基因存在与缺失变异及其在基因表达和适应中的作用研究

芸苔炫彩：包含41个芸苔种基因组的物种群图泛基因组，用于表示存在与否变异翻译改进