Using phenomics to identify and integrate traits of interest for better-performing common beans: A validation study on an interspecific hybrid and its Acutifolii parents.
Using phenomics to identify and integrate traits of interest for better-performing common beans: A validation study on an interspecific hybrid and its Acutifolii parents.
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DOI：
10.3389/fpls.2022.1008666
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发表时间：
2022
影响因子：
5.6
通讯作者：
Wenzl, Peter
中科院分区：
文献类型：
--
作者：
Rodriguez, Diego Felipe Conejo;Urban, Milan Oldrich;Santaella, Marcela;Gereda, Javier Mauricio;Contreras, Aquiles Darghan;Wenzl, Peter
由于传统的基因库加入描述符是半主观的，具有定性特征，并且在评估中间加入时表现出复杂性，因此对种间杂交种的评价是有限的。然而，描述符可以使用公认的表型性状进行量化。这种数字化可以识别与亲本描述符在特定种间杂交中剩余表达/可见/可测量的百分比相对应的表型性状。本研究采用CIAT种子再生程序，在网房内播种了一系普通胡杨、针叶胡杨和小叶胡杨材料及其杂交组合。利用多变量和机器学习技术对3个材料和1个源自种间杂交的衍生选育系进行了特征描述和分类。利用随机森林和各自的混淆矩阵测定了种间杂交种（inb47）相对于其三个亲本的现象比例。对种子和荚果形态性状、生理行为和产量性能进行了评价。在品种分类中，预测力最高的现象描述符为Fm′、Fo′、Fs′、LTD、Chl、种子面积、种子高度、种子Major、种子MinFeret、种子Minor、荚果AR、荚果Feret、荚果圆度、荚果结实度、荚果面积、荚果Major、荚果种子重、荚果重。种间杂交种的生理性状与尖叶假单胞的相似度为2.2%，与小叶假单胞的相似度为1%。此外，在种子形态特征上，该杂交品种与尖刀蒿的相似性为4.5%。在这里，我们能够确定个体亲本在其种间杂交中所占的显着比例。经过一些仔细的推广，该方法可用于：i)验证从尖叶假单胞虫和小叶假单胞虫进入其杂交后代的兴趣性状转移；Ii)确认所选性状为“表型标记”，这将允许保留外来亲本材料所需的生理性状，而不会失去普通豆优质材料的关键种子特性；iii)提出一种定量工具，帮助基因库管理员和育种者根据定量分析做出更明智的决策。
Evaluations of interspecific hybrids are limited, as classical genebank accession descriptors are semi-subjective, have qualitative traits and show complications when evaluating intermediate accessions. However, descriptors can be quantified using recognized phenomic traits. This digitalization can identify phenomic traits which correspond to the percentage of parental descriptors remaining expressed/visible/measurable in the particular interspecific hybrid. In this study, a line of P. vulgaris, P. acutifolius and P. parvifolius accessions and their crosses were sown in the mesh house according to CIAT seed regeneration procedures. Three accessions and one derived breeding line originating from their interspecific crosses were characterized and classified by selected phenomic descriptors using multivariate and machine learning techniques. The phenomic proportions of the interspecific hybrid (line INB 47) with respect to its three parent accessions were determined using a random forest and a respective confusion matrix. The seed and pod morphometric traits, physiological behavior and yield performance were evaluated. In the classification of the accession, the phenomic descriptors with highest prediction force were Fm’, Fo’, Fs’, LTD, Chl, seed area, seed height, seed Major, seed MinFeret, seed Minor, pod AR, pod Feret, pod round, pod solidity, pod area, pod major, pod seed weight and pod weight. Physiological traits measured in the interspecific hybrid present 2.2% similarity with the P. acutifolius and 1% with the P. parvifolius accessions. In addition, in seed morphometric characteristics, the hybrid showed 4.5% similarity with the P. acutifolius accession. Here we were able to determine the phenomic proportions of individual parents in their interspecific hybrid accession. After some careful generalization the methodology can be used to: i) verify trait-of-interest transfer from P. acutifolius and P. parvifolius accessions into their hybrids; ii) confirm selected traits as “phenomic markers” which would allow conserving desired physiological traits of exotic parental accessions, without losing key seed characteristics from elite common bean accessions; and iii) propose a quantitative tool that helps genebank curators and breeders to make better-informed decisions based on quantitative analysis.
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机器学习应用和聚类方法优化改进了黑莓种质库中描述符的选择。
DOI：
10.3390/plants10020247
发表时间：
2021-01-28
期刊：
Plants (Basel, Switzerland)
影响因子：
--
作者：
Henao-Rojas JC;Rosero-Alpala MG;Ortiz-Muñoz C;Velásquez-Arroyo CE;Leon-Rueda WA;Ramírez-Gil JG
通讯作者：
Ramírez-Gil JG
DOI：
10.17348/jbrit.v15.i1.1052
发表时间：
2021-07-23
影响因子：
--
作者：
Debouck, D. G.
通讯作者：
Debouck, D. G.
影响因子：
9.2
作者：
Feldmann, Mitchell J.;Hardigan, Michael A.;Knapp, Steven J.
通讯作者：
Knapp, Steven J.
影响因子：
--
作者：
Haghighi, K. R.;Ascher, P. D.
通讯作者：
Ascher, P. D.
影响因子：
8
作者：
HUANG, LK;WANG, MJJ
通讯作者：
WANG, MJJ