A quick and precise online near-infrared spectroscopy assay for high-throughput screening biomass digestibility in large scale sugarcane germplasm

Adnan, Muhammad; Shen, Yinjuan; Ma, Fumin; Wang, Maoyao; Jiang, Feng; Hu, Qian; Mao, Le; Lu, Pan; Chen, Xiaoru; He, Guanyong; Khan, Muhammad Tahir; Deng, Zuhu; Chen, Baoshan; Huang, Jiangfeng

doi:10.1016/j.indcrop.2022.115814

Cited by 9 publications

(12 citation statements)

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“…In our previous study, NIRS has been successfully applied for sugarcane stalk quality assessment in terms of moisture, soluble sugar, insoluble residue, and the corresponding fundamental ratios [33]. Besides, cell wall features calibration models have also been set up for related genetic development [34]. These proposed methods are showing positive permits for large-scale screening of optimal sugarcane germplasm for sugarcane breeding.…”

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confidence: 99%

A high-throughput method for precise phenotyping sugarcane stalk mechanical strength using near-infrared spectroscopy

Shen

Adnan

et al. 2022

Preprint

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Background: Sugarcane (Saccharum officinarum L.) is the core crop for sugar and bioethanol production over the world. A major problem in sugarcane production is stalk lodging due to weak mechanical strength. Since there are no efficient methods for determining stalk mechanical strength in sugarcane, genetic approaches for improving stalk lodging resistance are largely limited. This study was designed to use near-infrared spectroscopy (NIRS) calibration assay to accurately assess mechanical strength on a high-throughput basis for the first time. Results: Hundreds of sugarcane germplasms were harvested at the mature stage in the year of 2019 and 2020. In terms of determining rind penetrometer resistance (RPR) and breaking force, large variations of mechanical strength were found in the sugarcane stalk internodes, based on well-established laboratory measurements. Through partial least square regression analysis, two online NIRS models were established with a high coefficient of determination (R2) and the ratio of prediction to deviation (RPD) values during calibration, internal cross-validation, and external validation. Remarkably, the equation for RPR exhibited R2 and RPD values as high as 1.00 and 17.7, as well as showing relatively low root mean square error values at 0.44 N mm-2 during global modeling, demonstrating excellent predictive performance. Conclusions: This study delivered a successful attempt for rapid and precise prediction of mechanical strength in sugarcane stalk by NIRS assay. By using these established models, genetic improvements could be made to phenotyping jobs for large-scale sugarcane germplasm.

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confidence: 99%

A high-throughput method for precise phenotyping sugarcane stalk mechanical strength using near-infrared spectroscopy

Shen

Adnan

et al. 2022

Preprint

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“…Numerous studies have shown that structural diversity in seed traits helps characterize both intra-and inter-species variation. Therefore, the study of macro-and micro-seed traits is important in quantifying genetic diversity and plant taxonomy (Barthlott, 1981;Grillo et al, 2010).…”

Section: Discussionmentioning

confidence: 99%

IPPS 2022 - Plant Phenotyping for a Sustainable Future

Schurr,

Kaiser,

Clarke

et al. 2024

Frontiers Research Topics

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Frontiers is more than just an open access publisher of scholarly articles: it is a pioneering approach to the world of academia, radically improving the way scholarly research is managed. The grand vision of Frontiers is a world where all people have an equal opportunity to seek, share and generate knowledge. Frontiers provides immediate and permanent online open access to all its publications, but this alone is not enough to realize our grand goals. Frontiers journal seriesThe Frontiers journal series is a multi-tier and interdisciplinary set of openaccess, online journals, promising a paradigm shift from the current review, selection and dissemination processes in academic publishing. All Frontiers journals are driven by researchers for researchers; therefore, they constitute a service to the scholarly community. At the same time, the Frontiers journal series operates on a revolutionary invention, the tiered publishing system, initially addressing specific communities of scholars, and gradually climbing up to broader public understanding, thus serving the interests of the lay society, too. Dedication to qualityEach Frontiers article is a landmark of the highest quality, thanks to genuinely collaborative interactions between authors and review editors, who include some of the world's best academicians. Research must be certified by peers before entering a stream of knowledge that may eventually reach the public -and shape society; therefore, Frontiers only applies the most rigorous and unbiased reviews. Frontiers revolutionizes research publishing by freely delivering the most outstanding research, evaluated with no bias from both the academic and social point of view. By applying the most advanced information technologies, Frontiers is catapulting scholarly publishing into a new generation. What are Frontiers Research Topics?Frontiers Research Topics are very popular trademarks of the Frontiers journals series: they are collections of at least ten articles, all centered on a particular subject. With their unique mix of varied contributions from Original Research to Review Articles, Frontiers Research Topics unify the most influential researchers, the latest key findings and historical advances in a hot research area.

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“…A default setting in OPUS software was used to select the wavelength range. A combination in terms of wavelength range selection and spectrum pretreatment was made to obtain calibration models in PLS analysis ( Li et al., 2021 ; Adnan et al., 2022 ). Internal cross-validation and external validation of the equations were used to evaluate the performance of the model ( Williams and Sobering, 1996 ).…”

Section: Methodsmentioning

confidence: 99%

“…For instances, NIRS has been used for high-throughput predicting fiber and nutrient content of dryland cereal cultivars ( Brenna and Berardo, 2004 ; Stubbs et al., 2010 ), phenotyping of moisture and amylose content in maize ( Wang et al., 2019 ; Dong et al., 2021 ), evaluating the composition of carbohydrates in soybean ( Leite et al., 2020 ; Singh et al., 2021 ), detecting biomass of plant root mixtures ( Roumet et al., 2006 ), analyzing available P contents in soils to aid fertilization ( Patzold et al., 2020 ), as well as determining the internal quality and physiological maturity in the fruit ( Cunha et al., 2016 ; de Carvalho et al., 2019 ; Minas et al., 2021 ). In our previous studies, the NIRS has been successfully applied for stalk quality determination ( Wang et al., 2021 ), cell wall features and lignocellulose digestibility characterization in sugarcane ( Li et al., 2021 ; Adnan et al., 2022 ). Notably, in a recent study, we have also successfully implemented the NIRS for assessing the mechanical strength of sugarcane stalks by measuring the rind penetrometer resistance (RPR) and breaking force ( Shen et al., 2022 ).…”

Section: Introductionmentioning

confidence: 99%

A high-throughput phenotyping assay for precisely determining stalk crushing strength in large-scale sugarcane germplasm

Shen

et al. 2023

Front. Plant Sci.

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Sugarcane is a major industrial crop around the world. Lodging due to weak mechanical strength is one of the main problems leading to huge yield losses in sugarcane. However, due to the lack of high efficiency phenotyping methods for stalk mechanical strength characterization, genetic approaches for lodging-resistant improvement are severely restricted. This study attempted to apply near-infrared spectroscopy high-throughput assays for the first time to estimate the crushing strength of sugarcane stalks. A total of 335 sugarcane samples with huge variation in stalk crushing strength were collected for online NIRS modeling. A comprehensive analysis demonstrated that the calibration and validation sets were comparable. By applying a modified partial least squares method, we obtained high-performance equations that had large coefficients of determination (R2 > 0.80) and high ratio performance deviations (RPD > 2.4). Particularly, when the calibration and external validation sets combined for an integrative modeling, we obtained the final equation with a coefficient of determination (R2) and ratio performance deviation (RPD) above 0.9 and 3.0, respectively, demonstrating excellent prediction capacity. Additionally, the obtained model was applied for characterization of stalk crushing strength in large-scale sugarcane germplasm. In a three-year study, the genetic characteristics of stalk crushing strength were found to remain stable, and the optimal sugarcane genotypes were screened out consistently. In conclusion, this study offers a feasible option for a high-throughput analysis of sugarcane mechanical strength, which can be used for the breeding of lodging resistant sugarcane and beyond.

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A quick and precise online near-infrared spectroscopy assay for high-throughput screening biomass digestibility in large scale sugarcane germplasm

Cited by 9 publications

References 26 publications

A high-throughput method for precise phenotyping sugarcane stalk mechanical strength using near-infrared spectroscopy

A high-throughput method for precise phenotyping sugarcane stalk mechanical strength using near-infrared spectroscopy

IPPS 2022 - Plant Phenotyping for a Sustainable Future

A high-throughput phenotyping assay for precisely determining stalk crushing strength in large-scale sugarcane germplasm

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