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野生甜菜基因组 Beta patula 和 Beta vulgaris ssp. maritima。

Genomes of the wild beets Beta patula and Beta vulgaris ssp. maritima.

机构信息

University of Natural Resources and Life Sciences (BOKU), 1190, Vienna, Austria.

Garvan Institute of Medical Research, Darlinghurst, 2010, NSW, Australia.

出版信息

Plant J. 2019 Sep;99(6):1242-1253. doi: 10.1111/tpj.14413. Epub 2019 Jul 15.

DOI:10.1111/tpj.14413
PMID:31104348
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9546096/
Abstract

We present draft genome assemblies of Beta patula, a critically endangered wild beet endemic to the Madeira archipelago, and of the closely related Beta vulgaris ssp. maritima (sea beet). Evidence-based reference gene sets for B. patula and sea beet were generated, consisting of 25 127 and 27 662 genes, respectively. The genomes and gene sets of the two wild beets were compared with their cultivated sister taxon B. vulgaris ssp. vulgaris (sugar beet). Large syntenic regions were identified, and a display tool for automatic genome-wide synteny image generation was developed. Phylogenetic analysis based on 9861 genes showing 1:1:1 orthology supported the close relationship of B. patula to sea beet and sugar beet. A comparative analysis of the Rz2 locus, responsible for rhizomania resistance, suggested that the sequenced B. patula accession was rhizomania susceptible. Reference karyotypes for the two wild beets were established, and genomic rearrangements were detected. We consider our data as highly valuable and comprehensive resources for wild beet studies, B. patula conservation management, and sugar beet breeding research.

摘要

我们呈现了 Beta patula（一种极度濒危的马德拉群岛特有野生甜菜）和密切相关的 Beta vulgaris ssp. maritima（海甜菜）的基因组草图组装。为 B. patula 和海甜菜生成了基于证据的参考基因集，分别由 25127 和 27662 个基因组成。将这两种野生甜菜的基因组和基因集与它们的栽培姐妹种 Beta vulgaris ssp. vulgaris（糖甜菜）进行了比较。鉴定了大型同线性区域，并开发了用于自动全基因组同线性图像生成的显示工具。基于显示 1:1:1 直系同源性的 9861 个基因的系统发育分析支持 B. patula 与海甜菜和糖甜菜密切相关。对负责抗根结线虫病的 Rz2 基因座的比较分析表明，测序的 B. patula 品系易患根结线虫病。为这两种野生甜菜建立了参考核型，并检测到了基因组重排。我们认为我们的数据是野生甜菜研究、B. patula 保护管理和糖甜菜育种研究的极具价值和全面的资源。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6bb4/9546096/6fe70fb12e39/TPJ-99-1242-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6bb4/9546096/e6ec547d858a/TPJ-99-1242-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6bb4/9546096/458638cd7fb1/TPJ-99-1242-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6bb4/9546096/7e7b517b029d/TPJ-99-1242-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6bb4/9546096/d6197e7dc8f9/TPJ-99-1242-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6bb4/9546096/6fe70fb12e39/TPJ-99-1242-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6bb4/9546096/e6ec547d858a/TPJ-99-1242-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6bb4/9546096/458638cd7fb1/TPJ-99-1242-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6bb4/9546096/7e7b517b029d/TPJ-99-1242-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6bb4/9546096/d6197e7dc8f9/TPJ-99-1242-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6bb4/9546096/6fe70fb12e39/TPJ-99-1242-g003.jpg

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