First identification report for amino acid composition of red algae Gracilaria spp. obtained from Central Java, Indonesia.

Biotechnologia Pub Date : 2024-12-19 eCollection Date: 2024-01-01 DOI:10.5114/bta.2024.145254
Klara Kharisma Bunga Chandra, Tri Rini Nuringtyas, Tri Joko Raharjo
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Abstract

Gracilaria is a genus of red algae found mainly in Asia. Various species of Gracilaria are distributed throughout Indonesia's marine waters, especially in coastal areas, and are cultivated for research and economic purposes. Gracilaria mainly consists of polysaccharides and pigments, which have hindered protein identification. The unique protein expressions have never been analyzed using a proteomic approach, and no reports are available on Gracilaria spp. amino acid sequences in Central Java. Based on this background, we aimed to explore Gracilaria protein characterization using unique peptide sequence analysis via LC-HRMS. The usage of liquid chromatography coupled with high-resolution mass spectrometry (LC-HRMS) has been growing in biomedical and environmental sciences, offering high accuracy in protein detection. We followed the LC-HRMS standard protocol with an optimized precipitation procedure. TCA/acetone precipitation was used for protein purification, after which the precipitate was subjected to protein digestion to obtain small peptide fractions. Protein analysis results are presented as protein concentrations, molecular models, and peptide sequences. This experiment identified four sequences derived from the Rhodophyta database: TKKILDK (845.5455 Da), TVKSLLTK (889.5717 Da), ILVKTLK (814.5761 Da), and TGcGRSKR (921.4683 Da). This study reveals peptide sequences for Gracilaria spp., showing similarities with other red algae species, along with the functions of the peptide sequences. Furthermore, amino acid models of secondary structures were provided to support our findings.

印度尼西亚中爪哇红藻紫菜属(Gracilaria spp.)氨基酸组成首次鉴定报告。
紫菜属是一种红藻属,主要分布在亚洲。各种各样的江蓠分布在印度尼西亚的海水中,特别是在沿海地区,并为研究和经济目的而种植。江蓠主要由多糖和色素组成,这阻碍了蛋白质的鉴定。这些独特的蛋白表达从未用蛋白质组学方法分析过,也没有关于中爪哇江蓠属氨基酸序列的报道。在此背景下,我们旨在利用LC-HRMS进行独特的肽序列分析,探索江蓠蛋白的特征。液相色谱联用高分辨率质谱法(LC-HRMS)在生物医学和环境科学领域的应用越来越广泛,为蛋白质检测提供了高精度的方法。我们遵循LC-HRMS标准方案,优化沉淀程序。用TCA/丙酮沉淀法纯化蛋白质,沉淀后进行蛋白质消化,得到小片段肽。蛋白质分析结果呈现为蛋白质浓度,分子模型和肽序列。本实验从Rhodophyta数据库中鉴定出4条序列:TKKILDK (845.5455 Da)、TVKSLLTK (889.5717 Da)、ILVKTLK (814.5761 Da)和TGcGRSKR (921.4683 Da)。本研究揭示了江蓠属的肽序列与其他红藻的相似之处,以及肽序列的功能。此外,二级结构的氨基酸模型也支持了我们的发现。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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