• 文献检索
  • 文档翻译
  • 深度研究
  • 学术资讯
  • Suppr Zotero 插件Zotero 插件
  • 邀请有礼
  • 套餐&价格
  • 历史记录
应用&插件
Suppr Zotero 插件Zotero 插件浏览器插件Mac 客户端Windows 客户端微信小程序
定价
高级版会员购买积分包购买API积分包
服务
文献检索文档翻译深度研究API 文档MCP 服务
关于我们
关于 Suppr公司介绍联系我们用户协议隐私条款
关注我们

Suppr 超能文献

核心技术专利:CN118964589B侵权必究
粤ICP备2023148730 号-1Suppr @ 2026

文献检索

告别复杂PubMed语法,用中文像聊天一样搜索,搜遍4000万医学文献。AI智能推荐,让科研检索更轻松。

立即免费搜索

文件翻译

保留排版,准确专业,支持PDF/Word/PPT等文件格式,支持 12+语言互译。

免费翻译文档

深度研究

AI帮你快速写综述,25分钟生成高质量综述,智能提取关键信息,辅助科研写作。

立即免费体验

沿着适应性行走的适应度景观的变化几何结构。

The changing geometry of a fitness landscape along an adaptive walk.

作者信息

Greene Devin, Crona Kristina

机构信息

University of California, Merced, Merced, California, United States of America.

出版信息

PLoS Comput Biol. 2014 May 22;10(5):e1003520. doi: 10.1371/journal.pcbi.1003520. eCollection 2014 May.

DOI:10.1371/journal.pcbi.1003520
PMID:24853069
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC4031059/
Abstract

It has recently been noted that the relative prevalence of the various kinds of epistasis varies along an adaptive walk. This has been explained as a result of mean regression in NK model fitness landscapes. Here we show that this phenomenon occurs quite generally in fitness landscapes. We propose a simple and general explanation for this phenomenon, confirming the role of mean regression. We provide support for this explanation with simulations, and discuss the empirical relevance of our findings.

摘要

最近人们注意到,各种上位性的相对流行程度在适应性进化过程中会发生变化。这一现象被解释为NK模型适应度景观中均值回归的结果。在这里,我们表明这种现象在适应度景观中相当普遍。我们针对这一现象提出了一个简单而通用的解释,证实了均值回归的作用。我们通过模拟为这一解释提供了支持,并讨论了我们研究结果的实证相关性。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/859cc01e3157/pcbi.1003520.g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/19edb3743c31/pcbi.1003520.g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/b7605b296819/pcbi.1003520.g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/3f59b71a0ce8/pcbi.1003520.g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/43b8023eebe9/pcbi.1003520.g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/e56a119b3930/pcbi.1003520.g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/8f12dc858c77/pcbi.1003520.g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/db97fd1daf73/pcbi.1003520.g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/859cc01e3157/pcbi.1003520.g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/19edb3743c31/pcbi.1003520.g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/b7605b296819/pcbi.1003520.g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/3f59b71a0ce8/pcbi.1003520.g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/43b8023eebe9/pcbi.1003520.g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/e56a119b3930/pcbi.1003520.g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/8f12dc858c77/pcbi.1003520.g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/db97fd1daf73/pcbi.1003520.g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/508d/4031059/859cc01e3157/pcbi.1003520.g008.jpg

相似文献

1
The changing geometry of a fitness landscape along an adaptive walk.沿着适应性行走的适应度景观的变化几何结构。
PLoS Comput Biol. 2014 May 22;10(5):e1003520. doi: 10.1371/journal.pcbi.1003520. eCollection 2014 May.
2
Inferring fitness landscapes by regression produces biased estimates of epistasis.通过回归推断适应度景观会产生偏倚的上位性估计。
Proc Natl Acad Sci U S A. 2014 Jun 3;111(22):E2301-9. doi: 10.1073/pnas.1400849111. Epub 2014 May 19.
3
Rapid adaptation of recombining populations on tunable fitness landscapes.可调节适应度景观中重组种群的快速适应。
Mol Ecol. 2024 May;33(10):e16900. doi: 10.1111/mec.16900. Epub 2023 Mar 20.
4
Gene Conversion Facilitates Adaptive Evolution on Rugged Fitness Landscapes.基因转换促进崎岖适应景观上的适应性进化。
Genetics. 2017 Dec;207(4):1577-1589. doi: 10.1534/genetics.117.300350. Epub 2017 Oct 4.
5
Properties of selected mutations and genotypic landscapes under Fisher's geometric model.费舍尔几何模型下选定突变的特性和基因型景观
Evolution. 2014 Dec;68(12):3537-54. doi: 10.1111/evo.12545. Epub 2014 Nov 17.
6
The population genetics of adaptation on correlated fitness landscapes: the block model.相关适应度景观上适应性的群体遗传学:模块模型。
Evolution. 2006 Jun;60(6):1113-24.
7
How Good Are Statistical Models at Approximating Complex Fitness Landscapes?统计模型在逼近复杂适应度景观方面的表现如何?
Mol Biol Evol. 2016 Sep;33(9):2454-68. doi: 10.1093/molbev/msw097. Epub 2016 May 14.
8
Recombination accelerates adaptation on a large-scale empirical fitness landscape in HIV-1.重组加速了HIV-1在大规模经验性适应度景观上的适应性。
PLoS Genet. 2014 Jun 26;10(6):e1004439. doi: 10.1371/journal.pgen.1004439. eCollection 2014 Jun.
9
The evolution of epistasis and its links with genetic robustness, complexity and drift in a phenotypic model of adaptation.上位性的进化及其在适应性表型模型中与遗传稳健性、复杂性和漂变的联系。
Genetics. 2009 May;182(1):277-93. doi: 10.1534/genetics.108.099127. Epub 2009 Mar 11.
10
Predicting the evolution of sex on complex fitness landscapes.预测复杂适应度景观上性别的进化。
PLoS Comput Biol. 2009 Sep;5(9):e1000510. doi: 10.1371/journal.pcbi.1000510. Epub 2009 Sep 18.

引用本文的文献

1
Immune pressure is key to understanding observed patterns of respiratory virus evolution in prolonged infections.免疫压力是理解在长期感染中观察到的呼吸道病毒进化模式的关键。
Virus Evol. 2025 Jul 21;11(1):veaf054. doi: 10.1093/ve/veaf054. eCollection 2025.
2
Effects of mating system and adaptedness on the evolution of fitness and mtDNA copy number in mitonuclear mismatched C. elegans.交配系统和适应性对线粒体核不匹配的秀丽隐杆线虫适应性进化及线粒体DNA拷贝数的影响。
Heredity (Edinb). 2025 Jul 28. doi: 10.1038/s41437-025-00786-6.
3
Epistasis and pleiotropy shape biophysical protein subspaces associated with drug resistance.

本文引用的文献

1
Selection biases the prevalence and type of epistasis along adaptive trajectories.选择会沿着适应轨迹偏倚上位性的频率和类型。
Evolution. 2013 Nov;67(11):3120-31. doi: 10.1111/evo.12192. Epub 2013 Jul 4.
2
Designing antibiotic cycling strategies by determining and understanding local adaptive landscapes.通过确定和理解局部适应景观来设计抗生素循环策略。
PLoS One. 2013;8(2):e56040. doi: 10.1371/journal.pone.0056040. Epub 2013 Feb 13.
3
The peaks and geometry of fitness landscapes.适应度景观的峰和几何形状。
上位性和多效性塑造与药物抗性相关的生物物理蛋白质子空间。
Phys Rev E. 2023 Nov;108(5-1):054408. doi: 10.1103/PhysRevE.108.054408.
4
Environmental modulation of global epistasis in a drug resistance fitness landscape.环境对药物抗性适应景观中全局上位性的调控。
Nat Commun. 2023 Dec 5;14(1):8055. doi: 10.1038/s41467-023-43806-x.
5
Epistasis meets pleiotropy in shaping biophysical protein subspaces associated with antimicrobial resistance.上位性与多效性共同塑造了与抗菌素耐药性相关的生物物理蛋白质子空间。
bioRxiv. 2023 Apr 9:2023.04.09.535490. doi: 10.1101/2023.04.09.535490.
6
Global epistasis on fitness landscapes.全球适应值景观上的上位性。
Philos Trans R Soc Lond B Biol Sci. 2023 May 22;378(1877):20220053. doi: 10.1098/rstb.2022.0053. Epub 2023 Apr 3.
7
Getting higher on rugged landscapes: Inversion mutations open access to fitter adaptive peaks in NK fitness landscapes.在崎岖的地形上获得更高的适应性:反转突变为 NK 适应性景观中的更适应的适应性峰开辟了通道。
PLoS Comput Biol. 2022 Oct 31;18(10):e1010647. doi: 10.1371/journal.pcbi.1010647. eCollection 2022 Oct.
8
Fitness of evolving bacterial populations is contingent on deep and shallow history but only shallow history creates predictable patterns.进化中的细菌种群的适合度取决于深时和浅时,但只有浅时才能产生可预测的模式。
Proc Biol Sci. 2022 Sep 14;289(1982):20221292. doi: 10.1098/rspb.2022.1292.
9
Global epistasis emerges from a generic model of a complex trait.全局上位性源自复杂性状的一般模型。
Elife. 2021 Mar 29;10:e64740. doi: 10.7554/eLife.64740.
10
Idiosyncratic epistasis creates universals in mutational effects and evolutionary trajectories.特异地遗传交互作用导致了突变效应和进化轨迹的普遍性。
Nat Ecol Evol. 2020 Dec;4(12):1685-1693. doi: 10.1038/s41559-020-01286-y. Epub 2020 Sep 7.
J Theor Biol. 2013 Jan 21;317:1-10. doi: 10.1016/j.jtbi.2012.09.028. Epub 2012 Oct 2.
4
Evolutionary accessibility of mutational pathways.突变途径的进化可及性。
PLoS Comput Biol. 2011 Aug;7(8):e1002134. doi: 10.1371/journal.pcbi.1002134. Epub 2011 Aug 18.
5
Negative epistasis between beneficial mutations in an evolving bacterial population.进化中的细菌群体中有益突变之间的负遗传相互作用。
Science. 2011 Jun 3;332(6034):1193-6. doi: 10.1126/science.1203801.
6
Diminishing returns epistasis among beneficial mutations decelerates adaptation.有益突变间的报酬递减性上位性会减缓适应速度。
Science. 2011 Jun 3;332(6034):1190-2. doi: 10.1126/science.1203799.
7
Reciprocal sign epistasis is a necessary condition for multi-peaked fitness landscapes.互惠性上位性是多峰适应度景观的必要条件。
J Theor Biol. 2011 Mar 7;272(1):141-4. doi: 10.1016/j.jtbi.2010.12.015. Epub 2010 Dec 16.
8
Exploring the effect of sex on empirical fitness landscapes.探索性别对经验性适应度景观的影响。
Am Nat. 2009 Jul;174 Suppl 1:S15-30. doi: 10.1086/599081.
9
Analysis of epistatic interactions and fitness landscapes using a new geometric approach.使用一种新的几何方法分析上位性相互作用和适应度景观。
BMC Evol Biol. 2007 Apr 13;7:60. doi: 10.1186/1471-2148-7-60.
10
Empirical fitness landscapes reveal accessible evolutionary paths.经验性适应度景观揭示了可及的进化路径。
Nature. 2007 Jan 25;445(7126):383-6. doi: 10.1038/nature05451.