JCR-Feasibility assessment of phenotyping cotton fiber maturity using infrared spectroscopy and algorithms for genotyping analyses

摘要：

[背景] 棉花纤维成熟度是决定棉花加工性能的一个重要因素。由于难以准确地从每一个遗传群体的单株获得纤维成熟度值，棉花遗传学家经常利用马克隆值（Micronaire, MIC）和/或衣分来区分未成熟纤维和成熟纤维，但它们都是复合性状。利用傅里叶变换红外光谱（Fourier transform infrared, FT-IR）测定棉纤维成熟度（Fiber maturity, M_IR）的算法是一种高效、准确地测定棉纤维成熟度的新方法。然而，该算法尚未在由大量子代样本组成的遗传群体中进行测试。

[结果] 通过比较708株具有不同纤维成熟度的棉花F₂群体中观察到的表型与基于其DNA标记基因型的预测表型，验证了基于MIC或衣分的表型分析方法的优劣。基于MIC纤维表型比基于衣分的纤维表型更符合预测的结果。每一个F₂单株的衣分都可以单独测定，但因为某些F₂单株产生的纤维量不足以进行测量，所以无法获得整个群体中所有个体的MIC值。为了测试棉纤维红外成熟度（M_IR）作为遗传表型分析工具的可行性，我们测量了由不同纤维成熟度的80株F₂组成的第二群体的FT-IR光谱,并用该算法测定了其M_IR值,并与对应的表型值及其他群体的纤维表型数据进行了比较。结果表明，从每个F₂单株均成功获得M_IR值，基于M_IR的结果与基于其DNA标记基因型的预测表型以及结合MIC和衣分的观察表型都非常吻合。

[结论] 从棉纤维的FT-IR光谱中获得的M_IR值能够以定量方式准确地评定种群中所有单株的纤维成熟度。该技术为棉花遗传学家提供了一种快速、有效地测定纤维成熟度的选择。

关键词：衰减全反射傅里叶变换红外光谱；棉花纤维成熟度；结晶度；未成熟纤维突变体

Abstract:

[Background] Cotton fiber maturity is an important property that partially determines the processing and performance of cotton. Due to difficulties of obtaining fiber maturity values accurately from every plant of a genetic population, cotton geneticists often use micronaire (MIC) and/or lint percentage for classifying immature phenotypes from mature fiber phenotypes although they are complex fiber traits. The recent development of an algorithm for determining cotton fiber maturity (M_IR) from Fourier transform infrared (FT-IR) spectra explores a novel way to measure fiber maturity efficiently and accurately. However, the algorithm has not been tested with a genetic population consisting of a large number of progeny plants.

[Results] The merits and limits of the MIC- or lint percentage-based phenotyping method were demonstrated by comparing the observed phenotypes with the predicted phenotypes based on their DNA marker genotypes in a genetic population consisting of 708 F₂ plants with various fiber maturity. The observed MIC-based fiber phenotypes matched to the predicted phenotypes better than the observed lint percentage-based fiber phenotypes. The lint percentage was obtained from each of F₂ plants, whereas the MIC values were unable to be obtained from the entire population since certain F₂ plants produced insufficient fiber mass for their measurements. To test the feasibility of cotton fiber infrared maturity (M_IR) as a viable phenotyping tool for genetic analyses, we measured FT-IR spectra from the second population composed of 80 F₂ plants with various fiber maturities, determined M_IR values using the algorithms, and compared them with their genotypes in addition to other fiber phenotypes. The results showed that M_IR values were successfully obtained from each of the F₂ plants, and the observed M_IR-based phenotypes fit well to the predicted phenotypes based on their DNA marker genotypes as well as the observed phenotypes based on a combination of MIC and lint percentage.

[Conclusions] The M_IR value obtained from FT-IR spectra of cotton fibers is able to accurately assess fiber maturity of all plants of a population in a quantitative way. The technique provides an option for cotton geneticists to determine fiber maturity rapidly and efficiently.

Keywords:

Attenuated total reflection Fourier transform infrared spectroscopy; Cotton fiber maturity; Crystallinity; Immature fiber (im) mutant

Title: Feasibility assessment of phenotyping cotton fiber maturity using infrared spectroscopy and algorithms for genotyping analyses

Authors: KIM Hee Jin, LIU Yongliang, FANG David D. and DELHOM Christopher D.

Journal of Cotton Research. 2019; 2:8

https://doi.org/10.1186/s42397-019-0027-0

https://jcottonres.biomedcentral.com/articles/10.1186/s42397-019-0027-0