Proteome Variation with Collagen Yield in Ancient Bone.
Proteome Variation with Collagen Yield in Ancient Bone.
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DOI：
10.1021/acs.jproteome.0c01014
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发表时间：
2021-03-05
影响因子：
4.4
通讯作者：
Buckley M
中科院分区：
文献类型：
--
作者：
Procopio N;Hopkins RJA;Harvey VL;Buckley M
同位素分析是应用于古代骨骼的最常见的分析方法之一，有助于解释过去的饮食和年表。为此，评估“胶原蛋白产量”（如放射性碳测年和稳定同位素研究中所定义的）是一个常规步骤，可以选择被认为足以进行后续分析的样本，其中包含低于10.1%“胶原蛋白产量”的样本通常用于同位素分析，但不适用于放射性碳测年。本研究的目的是使用MALDI-TOF（基质辅助激光解吸电离飞行时间质谱法）和LC-ESI-MS/MS（液相色谱电喷雾电离串联质谱法）的蛋白质组学方法来研究通常被认为含有保存较差的蛋白质的样品中的主要蛋白质生物分子的内分泌。以29个考古样品，我们评估了蛋白质凝胶化前去除的不同酸溶性组分之间的蛋白质组变异性，并将废物视为放射性碳测年过程的一部分。然后，我们将这些蛋白质组与常用的“胶原蛋白产量”代表保存。我们发现，这些废物馏分含有大量的胶原蛋白和非胶原蛋白（NCPs），但这些丰度与获得的“胶原蛋白产量”无关。而不是耗尽的蛋白质负载，将从低的“胶原蛋白产量”预期，各种提取的NCP是可比的，通常从古代样品中获得，并包括有用的物种鉴定，系统发育研究，甚至可能用于同位素分析的信息蛋白质，给出进一步的方法发展。此外，我们没有观察到“胶原蛋白产量”和肽质量指纹成功之间或从同一样品但在不同放射性碳预处理阶段获得的不同级分之间的任何相关性。总的来说，这些发现突出了保留和分析样品组分的价值，这些样品组分在放射性碳测年过程中被丢弃为废物，但更重要的是，低“胶原蛋白产量”的标本通常被考古学家误解为缺乏蛋白质，仍然可以产生有用的分子序列信息。
Isotope analyses are some of the most common analytical methods applied to ancient bone, aiding the interpretation of past diets and chronology. For this, the evaluation of “collagen yield” (as defined in radiocarbon dating and stable isotope research) is a routine step that allows for the selection of specimens that are deemed adequate for subsequent analyses, with samples containing less than ∼1% “collagen yield” normally being used for isotopic analysis but discounted for radiocarbon dating. The aims of this study were to use proteomic methods of MALDI–TOF (matrix assisted laser desorption ionization time-of-fligh mass spectrometry) and LC−ESI−MS/MS (liquid chromatography electrospray ionization tandem mass spectrometry) to investigate the endogeneity of the dominant proteinaceous biomolecules within samples that are typically considered to contain poorly preserved protein. Taking 29 archaeological samples, we evaluated the proteome variability between different acid-soluble fractions removed prior to protein gelatinization and considered waste as part of the radiocarbon dating process. We then correlated these proteomes against the commonly used “collagen yield” proxy for preservation. We found that these waste fractions contained a significant amount of both collagenous and noncollagenous proteins (NCPs) but that the abundance of these was not correlated with the acquired “collagen yield”. Rather than a depleted protein load as would be expected from a low “collagen yield”, the variety of the extracted NCPs was comparable with that commonly obtained from ancient samples and included informative proteins useful for species identification, phylogenetic studies, and potentially even for isotopic analyses, given further method developments. Additionally, we did not observe any correlation between “collagen yield” and peptide mass fingerprint success or between the different fractions taken from the same sample but at different radiocarbon pretreatment stages. Overall, these findings highlight the value in retaining and analyzing sample fractions that are otherwise discarded as waste during the radiocarbon dating process but more importantly, that low “collagen yield” specimens that are often misinterpreted by archaeologists as being devoid of protein can still yield useful molecular sequence-based information.
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影响因子：
3.7
作者：
Harvey VL;Egerton VM;Chamberlain AT;Manning PL;Buckley M
通讯作者：
Buckley M
影响因子：
64.8
作者：
LONGIN, R
通讯作者：
LONGIN, R
影响因子：
2
作者：
Buckley, Michael;Collins, Matthew;Wilson, Julie C.
通讯作者：
Wilson, Julie C.
影响因子：
2.8
作者：
Buckley, Mike;Kansa, Sarah Whitcher;Collins, Matthew
通讯作者：
Collins, Matthew
影响因子：
7
作者：
Olsen, JV;Ong, SE;Mann, M
通讯作者：
Mann, M