转录组测序揭示了一份29岁蚕豆样本的基因组序列。
Transcriptome Sequencing Reveals the Genome Sequence of from a 29-Year-Old Faba Bean Sample.
作者信息
Maina S, Zheng L, King S, McQueen V L, Norton S L, Rodoni B
机构信息
Australian Grains Genebank, Agriculture Victoria, Horsham, Victoria, Australia
Agriculture Victoria, AgriBio, Melbourne, Victoria, Australia.
出版信息
Microbiol Resour Announc. 2020 Jul 9;9(28):e00673-20. doi: 10.1128/MRA.00673-20.
Abstract
(PEBV) is transmitted by soil-inhabiting trichodorid nematodes and via seeds. The transcriptome sequencing method, followed by assembly, revealed the PEBV Libyan isolate LyV66-91 genome. Its RNA1 resembled that of UK isolate SP5 with 93.91% nucleotide identity, and its RNA2 had 63.32% nucleotide identity to that of Dutch isolate E116.
摘要
豌豆早褐病毒（PEBV）通过栖息于土壤中的毛刺线虫传播，并通过种子传播。转录组测序方法，随后进行组装，揭示了PEBV利比亚分离株LyV66 - 91的基因组。其RNA1与英国分离株SP5的RNA1相似，核苷酸同一性为93.91%，其RNA2与荷兰分离株E116的RNA2的核苷酸同一性为63.32%。
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Plant Dis. 2017 Jun;101(6):985-993. doi: 10.1094/PDIS-10-16-1499-RE. Epub 2017 Apr 4.
2
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Genome Res. 2017 May;27(5):824-834. doi: 10.1101/gr.213959.116. Epub 2017 Mar 15.
3
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