Mapping the root systems of individual trees in a natural community using genotyping-by-sequencing.
Mapping the root systems of individual trees in a natural community using genotyping-by-sequencing.
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使用测序基因分型绘制自然群落中单棵树的根系图。
DOI：
10.1111/nph.18645
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发表时间：
2023
期刊：
影响因子：
--
通讯作者：
Osborne OG
中科院分区：
文献类型：
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作者：
Osborne OG
根系构型是植物适应性、竞争和生态系统过程的重要驱动力。然而，映射根的方法上的困难阻碍了这些过程的研究。现有的方法来匹配个别植物地下样品是低通量和物种特异性。在这里，我们开发了一种可扩展的基于测序的方法来映射多个物种中单个树木的根系。我们成功地将其应用于巴西卡廷加的一个热带干旱森林群落，该群落包含14个物种。我们使用双酶切限制性位点相关测序（ddRADseq）对14 × 14 m地块中的所有42个个体灌木和树木进行了测序。我们从数据中确定了物种特异性标记和个体特异性单倍型。我们使用新开发的R软件包将这些标记与来自四个不同深度的100个混合根样本的ddRADseq数据进行了匹配。我们确定了所有物种的个体根样本，除了一个个体。地下和地上的大小测量之间有很强的显着相关性，我们还发现了两个物种的显着物种水平的根深偏好。该方法比现有技术更具可扩展性，劳动强度更低，广泛适用于生态学，林业和农业生物学。
The architecture of root systems is an important driver of plant fitness, competition and ecosystem processes. However, the methodological difficulty of mapping roots hampers the study of these processes. Existing approaches to match individual plants to belowground samples are low throughput and species specific. Here, we developed a scalable sequencing‐based method to map the root systems of individual trees across multiple species. We successfully applied it to a tropical dry forest community in the Brazilian Caatinga containing 14 species.We sequenced all 42 individual shrubs and trees in a 14 × 14 m plot using double‐digest restriction site‐associated sequencing (ddRADseq). We identified species‐specific markers and individual‐specific haplotypes from the data. We matched these markers to the ddRADseq data from 100 mixed root samples from across the centre (10 × 10 m) of the plot at four different depths using a newly developed R package.We identified individual root samples for all species and all but one individual. There was a strong significant correlation between belowground and aboveground size measurements, and we also detected significant species‐level root‐depth preference for two species.The method is more scalable and less labour intensive than the current techniques and is broadly applicable to ecology, forestry and agricultural biology.