相关实验视频

Updated: Jul 28, 2025

Laboratory Estimation of Net Trophic Transfer Efficiencies of PCB Congeners to Lake Trout Salvelinus namaycush from Its Prey

Laboratory Estimation of Net Trophic Transfer Efficiencies of PCB Congeners to Lake Trout Salvelinus namaycush from Its Prey

Published on: August 29, 2014

提取大西洋鱼代谢的功能精确的特定背景模型

Håvard Molversmyr^1,2, Ove Øyås^1,2, Filip Rotnes^1,2

¹Faculty of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, Ås, Norway.

NPJ systems biology and applications

|May 27, 2023

概括

特定背景的代谢模型可以提高对鱼代谢的理解. 三种模型提取方法 (MEM) 准确地捕获了代谢功能,优于大西洋鱼的通用模型. 这突显了在动物研究中的特定环境建模的价值.

科学领域:

代谢网络建模代谢网络建模
系统生物学系统生物学
动物生理学动物生理学

背景情况:

基于约束的模型 (CBMs) 通常代表通用的代谢网络,缺乏特定上下文的细节.
代谢能力在不同的细胞类型,组织和环境条件之间有很大的差异.
从通用CBM中提取特定背景模型对于准确的生物学解释至关重要.

研究的目的:

评估不同模型提取方法 (MEM) 在生成基于特定环境约束的模型中的有效性.
用大西洋鱼肝脏转录组学数据评估提取模型的功能准确性.
为了比较特定背景模型与通用模型的性能,以了解鱼代谢.

主要方法:

在大西洋鱼中使用了SALARECON通用CBM.
综合肝脏转录组学数据来自不同的盐度和食脂质条件.
测试了六种不同的模型提取方法 (MEM),包括iMAT,INIT和GIMME.
基于模型执行特定环境代谢任务的能力定义的功能准确性.

主要成果:

三个MEM (iMAT,INIT和GIMME) 在提取特定环境模型方面表现出卓越的功能准确性.
在测试的MEM中,GIMME方法表现出最快的计算性能.
在捕获鱼新陈代谢方面,特定环境的SALARECON模型始终优于通用版本.
这项研究证实了人类研究的发现对大西洋鱼等非哺乳动物物种的适用性.

结论:

特定于环境的建模显著提高了大西洋鱼代谢网络分析的准确性.
选择的MEM提供了可靠的工具,用于从omics数据中生成功能相关的特定环境模型.
这种方法验证了特定环境的CBM对包括牲畜在内的各种动物物种的有用性.

更多相关视频

Experimental Protocol for Examining Behavioral Response Profiles in Larval Fish: Application to the Neuro-stimulant Caffeine

Experimental Protocol for Examining Behavioral Response Profiles in Larval Fish: Application to the Neuro-stimulant Caffeine

Published on: July 24, 2018

Assessing Mineral Availability in Fish Feeds using Complementary Methods Demonstrated with the Example of Zinc in Atlantic Salmon

Assessing Mineral Availability in Fish Feeds using Complementary Methods Demonstrated with the Example of Zinc in Atlantic Salmon

Published on: October 29, 2021

相关概念视频

Osmoregulation in Fishes

Osmoregulation in Fishes

When cells are placed in a hypotonic (low-salt) fluid, they can swell and burst. Meanwhile, cells in a hypertonic solution—with a higher salt concentration—can shrivel and die. How do fish cells avoid these gruesome fates in hypotonic freshwater or hypertonic seawater environments?

Mechanistic Models: Compartment Models in Individual and Population Analysis

Mechanistic Models: Compartment Models in Individual and Population Analysis

Mechanistic models are utilized in individual analysis using single-source data, but imperfections arise due to data collection errors, preventing perfect prediction of observed data. The mathematical equation involves known values (Xi), observed concentrations (Ci), measurement errors (εi), model parameters (ϕj), and the related function (ƒi) for i number of values. Different least-squares metrics quantify differences between predicted and observed values. The ordinary least...