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本文引用的文献

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Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm.使用带有 hifiasm 的相定装配图进行单体型解析从头组装。
Nat Methods. 2021 Feb;18(2):170-175. doi: 10.1038/s41592-020-01056-5. Epub 2021 Feb 1.
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Extensive haplotypes are associated with population differentiation and environmental adaptability in Upland cotton (Gossypium hirsutum).广泛的单倍型与陆地棉(Gossypium hirsutum)的群体分化和环境适应性相关。
Theor Appl Genet. 2020 Dec;133(12):3273-3285. doi: 10.1007/s00122-020-03668-z. Epub 2020 Aug 25.
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Genomic diversifications of five Gossypium allopolyploid species and their impact on cotton improvement.五个棉属异源多倍体物种的基因组多样化及其对棉花改良的影响。
Nat Genet. 2020 May;52(5):525-533. doi: 10.1038/s41588-020-0614-5. Epub 2020 Apr 20.
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RepeatModeler2 for automated genomic discovery of transposable element families.RepeatModeler2 用于自动发现转座元件家族的基因组。
Proc Natl Acad Sci U S A. 2020 Apr 28;117(17):9451-9457. doi: 10.1073/pnas.1921046117. Epub 2020 Apr 16.
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Genome sequence of Gossypium herbaceum and genome updates of Gossypium arboreum and Gossypium hirsutum provide insights into cotton A-genome evolution.陆地棉、亚洲棉和雷蒙德氏棉基因组序列为研究棉属 A 基因组进化提供了重要线索。
Nat Genet. 2020 May;52(5):516-524. doi: 10.1038/s41588-020-0607-4. Epub 2020 Apr 13.
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Origin, Diversity, and Evolution of Telomere Sequences in Plants.植物端粒序列的起源、多样性及进化
Front Plant Sci. 2020 Feb 21;11:117. doi: 10.3389/fpls.2020.00117. eCollection 2020.
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Genome Sequence Assemblies of and . 和 的基因组序列组装。
G3 (Bethesda). 2019 Oct 7;9(10):3079-3085. doi: 10.1534/g3.119.400392.
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Extensive intraspecific gene order and gene structural variations in upland cotton cultivars.陆地棉品种中广泛的种内基因顺序和基因结构变异。
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Whole-Genome Annotation with BRAKER.使用BRAKER进行全基因组注释。
Methods Mol Biol. 2019;1962:65-95. doi: 10.1007/978-1-4939-9173-0_5.
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Plant-Parasitic Nematodes Attacking Cotton in the United States: Old and Emerging Production Challenges.美国攻击棉花的植物寄生线虫:旧有的和新出现的生产挑战
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两种抗线虫棉花品系(棉属)的基因组组装。

Genome assembly of two nematode-resistant cotton lines (Gossypium hirsutum L.).

机构信息

USDA Agricultural Research Service, Insect Control and Cotton Disease Research Unit, College Station, TX 77845, USA.

USDA Agricultural Research Service, Crop Germplasm Research Unit, College Station, TX 77845, USA.

出版信息

G3 (Bethesda). 2021 Oct 19;11(11). doi: 10.1093/g3journal/jkab276.

DOI:10.1093/g3journal/jkab276
PMID:34849785
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC8527472/
Abstract

Upland cotton (Gossypium hirsutum L.) is susceptible to damage by the root-knot and the reniform nematodes, causing yield losses greater than 4% annually in the United States. In addition, these nematodes are synergistic with seeding disease and root rot pathogens that exacerbate diseases and subsequent yield losses. Production practices to minimize nematode damage include crop rotation and nematicides, but these techniques need to be repeated and are expensive. The use of resistant cultivars is deemed the most effective and economical approach for managing nematodes in cotton. Here, we describe the genomes of two nematode-resistant lines of cotton, BARBREN-713 and BAR 32-30. These genomes may expedite the development of DNA markers that can be used to efficiently introduce nematode resistance into commercially valuable Upland lines.

摘要

陆地棉(Gossypium hirsutum L.)易受根结线虫和肾形线虫的侵害,在美国每年造成超过 4%的产量损失。此外,这些线虫与引发病害和随后减产的种子病害和根腐病病原体具有协同作用。减少线虫损害的生产实践包括轮作和杀线虫剂,但这些技术需要重复使用且成本高昂。使用抗性品种被认为是管理棉花线虫最有效和经济的方法。在这里,我们描述了两种抗线虫棉花品系 BARBREN-713 和 BAR 32-30 的基因组。这些基因组可能会加速开发 DNA 标记,这些标记可用于有效地将线虫抗性引入具有商业价值的陆地棉品系中。