Multi-country metabolic signature discovery for chicken health classification.
Multi-country metabolic signature discovery for chicken health classification.
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鸡肉健康分类的多国代谢签名发现。
DOI：
10.1007/s11306-023-01973-4
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发表时间：
2023-02-02
期刊：
影响因子：
--
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中科院分区：
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为了减少抗生素耐药性，它们在农业部门作为生长促进剂的用途已基本被放弃。这可能会因传染病或微生物组变化导致肠道炎症而导致健康状况下降。 我们的目标是生成对血液中鸡的健康状况进行分类的 m/z 特征，并从生成的 m/z 特征中获得生物学见解。 我们使用直接输注质谱法来确定机器学习的代谢组学特征，该特征可以根据血液样本对鸡的健康状况进行分类。然后，我们使用留一国（LOCO）交叉验证策略，通过调查在以前未见过的国家的禽舍中获得的新数据的签名的分类能力，对所得模型提出了挑战。此外，我们优化了最大化随机森林模型分类能力所需的质量/电荷 (m/z) 值的数量，方法是开发一种基于组合单变量 t 检验和倍数变化分析的新颖排序系统，并通过前向和反向特征选择基于此排序构建模型。多国模型和LOCO模型可以对鸡的健康状况进行分类。由此产生的 25-m/z 和 3784-m/z 特征都可靠地对多个国家的鸡健康状况进行了分类。通过对大 m/z 特征的 mummichog 富集分析，我们发现了氨基酸代谢的变化，包括支链氨基酸和多胺。我们通过血液可靠地对鸡的健康状况进行了分类，不受遗传、农场、饲料和国家特定混杂因素的影响。 25-m/z 特征可用于帮助开发每个代谢物组。扩展的 3784-m/z 版本可用于更深入地了解鸡健康状况不佳的代谢原因和后果。它们共同可以促进未来的治疗、预防和干预。在线版本包含可在 10.1007/s11306-023-01973-4 获取的补充材料。
To decrease antibiotic resistance, their use as growth promoters in the agricultural sector has been largely abandoned. This may lead to decreased health due to infectious disease or microbiome changes leading to gut inflammation. We aimed to generate a m/z signature classifying chicken health in blood, and obtain biological insights from the resulting m/z signature. We used direct infusion mass-spectrometry to determine a machine-learned metabolomics signature that classifies chicken health from a blood sample. We then challenged the resulting models by investigating the classification capability of the signature on novel data obtained at poultry houses in previously unseen countries using a Leave-One-Country-Out (LOCO) cross-validation strategy. Additionally, we optimised the number of mass/charge (m/z) values required to maximise the classification capability of Random Forest models, by developing a novel ranking system based on combined univariate t-test and fold-change analyses and building models based on this ranking through forward and reverse feature selection. The multi-country and LOCO models could classify chicken health. Both resulting 25-m/z and 3784-m/z signatures reliably classified chicken health in multiple countries. Through mummichog enrichment analysis on the large m/z signature, we found changes in amino acid metabolism, including branched chain amino acids and polyamines. We reliably classified chicken health from blood, independent of genetic-, farm-, feed- and country-specific confounding factors. The 25-m/z signature can be used to aid development of a per-metabolite panel. The extended 3784-m/z version can be used to gain a deeper understanding of the metabolic causes and consequences of low chicken health. Together, they may facilitate future treatment, prevention and intervention. The online version contains supplementary material available at 10.1007/s11306-023-01973-4.
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DOI：
10.1152/ajpgi.00319.2017
发表时间：
2018-08-01
影响因子：
4.5
作者：
Gilbert, Myrthe S.;Ijssennagger, Noortje;van Mil, Saskia W. C.
通讯作者：
van Mil, Saskia W. C.
影响因子：
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作者：
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DOI：
10.1007/978-3-030-54462-1_7
发表时间：
2021-01-01
期刊：
AMINO ACIDS IN NUTRITION AND HEALTH: AMINO ACIDS IN THE NUTRITION OF COMPANION, ZOO AND FARM ANIMALS
影响因子：
--
作者：
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DOI：
10.3390/ani11082183
发表时间：
2021-07-23
期刊：
Animals : an open access journal from MDPI
影响因子：
--
作者：
Wang Y;Xu Y;Wu Y;Mahmood T;Chen J;Guo X;Wu W;Wang B;Guo Y;Yuan J
通讯作者：
Yuan J
影响因子：
3.6
作者：
Wolthuis, Joanna C.;Magnusdottir, Stefania;de Ridder, Jeroen
通讯作者：
de Ridder, Jeroen