• 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

运用贝叶斯推断和最大简约法解析新生代仓鼠(哺乳纲,啮齿目,仓鼠科)的系统发生关系。

Phylogenetic relationships of Neogene hamsters (Mammalia, Rodentia, Cricetinae) revealed under Bayesian inference and maximum parsimony.

机构信息

ISEM, University of Montpellier, CNRS, IRD, Montpellier, France.

Departamento de Paleobiología, Museo Nacional de Ciencias Naturales-CSIC, Madrid, Spain.

出版信息

PeerJ. 2024 Nov 15;12:e18440. doi: 10.7717/peerj.18440. eCollection 2024.

DOI:10.7717/peerj.18440
PMID:39559336
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11572387/
Abstract

There is an ongoing debate about the internal systematics of today's group of hamsters (Cricetinae), following new insights that are gained based on molecular data. Regarding the closely related fossil cricetids, however, most studies deal with only a limited number of genera and statements about their possible relationships are rare. In this study, 41 fossil species from the Late Miocene to the Pliocene, belonging to seven extinct cricetine genera, , , , , , and are analysed in a phylogenetic framework using traditional maximum parsimony and Bayesian inference approaches. Following thorough model testing, a relaxed-clock Bayesian inference analysis is performed under tip-dating to estimate divergence times simultaneously. Furthermore, so-called 'rogue' taxa are identified and excluded from the final trees to improve the informative value of the shown relationships. Based on these resulting trees, the fit of the topologies to the stratigraphy is assessed and the ancestral states of the characters are reconstructed under a parsimonious approach and stochastic character mapping. The overall topologies resulting from Bayesian and parsimonious approaches are largely congruent to each other and confirm the monophyly of most of the genera. Additionally, synapomorphies can be identified for each of these genera based on the ancestral state reconstructions. Only turns out to be paraphyletic, while '' is a member of . Lastly, this work makes a contribution to a debate that went on for decades, as the genus can be confirmed as junior synonym of .

摘要

目前,基于分子数据的新见解,关于现今仓鼠科(Cricetinae)的内部系统发育仍存在争议。然而,对于密切相关的化石仓鼠类,大多数研究只涉及有限数量的属,关于它们可能的关系的说法很少。在这项研究中,使用传统的最大简约法和贝叶斯推断方法,在系统发育框架内分析了属于七个已灭绝仓鼠属的 41 种晚中新世到上新世的化石物种, 、 、 、 、 、 和 。在彻底的模型测试之后,对基于枝点定年的松弛时钟贝叶斯推断分析进行了执行,以便同时估计分歧时间。此外,还识别并排除了所谓的“离群”分类单元,以提高显示关系的信息量。基于这些生成的树,评估拓扑结构与地层的拟合程度,并在简约法和随机特征映射下重建特征的祖先状态。贝叶斯和简约法得出的总体拓扑结构在很大程度上彼此一致,并且确认了大多数属的单系性。此外,还可以基于祖先状态重建为每个属识别出共形特征。只有 被证明是并系的,而 '' 是 的成员。最后,这项工作对几十年来的争论做出了贡献,因为 可以被确认为 的次异名。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b572/11572387/c9a56a52a8c2/peerj-12-18440-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b572/11572387/3c2457800113/peerj-12-18440-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b572/11572387/631ca59da623/peerj-12-18440-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b572/11572387/c9a56a52a8c2/peerj-12-18440-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b572/11572387/3c2457800113/peerj-12-18440-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b572/11572387/631ca59da623/peerj-12-18440-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/b572/11572387/c9a56a52a8c2/peerj-12-18440-g003.jpg

相似文献

1
Phylogenetic relationships of Neogene hamsters (Mammalia, Rodentia, Cricetinae) revealed under Bayesian inference and maximum parsimony.运用贝叶斯推断和最大简约法解析新生代仓鼠(哺乳纲,啮齿目,仓鼠科)的系统发生关系。
PeerJ. 2024 Nov 15;12:e18440. doi: 10.7717/peerj.18440. eCollection 2024.
2
Bayesian Morphological Clock versus Parsimony: An Insight into the Relationships and Dispersal Events of Postvacuum Cricetidae (Rodentia, Mammalia).贝叶斯形态钟与简约法:对真空后仓鼠科(啮齿目,哺乳纲)的关系及扩散事件的洞察
Syst Biol. 2022 Apr 19;71(3):512-525. doi: 10.1093/sysbio/syab059.
3
Relative performance of Bayesian morphological clock and parsimony methods for phylogenetic reconstructions: Insights from the case of Myomiminae and Dryomyinae glirid rodents.贝叶斯形态时钟和简约法在系统发育重建中的相对表现:以林跳鼠科和栉趾鼠科啮齿动物为例的分析。
Cladistics. 2022 Dec;38(6):702-710. doi: 10.1111/cla.12516. Epub 2022 Aug 31.
4
Bayesian Tip-Dated Phylogenetics in Paleontology: Topological Effects and Stratigraphic Fit.古生物学中的贝叶斯日期推断系统发育学:拓扑效应与地层拟合。
Syst Biol. 2021 Feb 10;70(2):283-294. doi: 10.1093/sysbio/syaa057.
5
Systematics and morphological evolution within the moss family Bryaceae: a comparison between parsimony and Bayesian methods for reconstruction of ancestral character states.藓科植物的系统学与形态演化:简约法与贝叶斯法在重建祖先性状状态上的比较
Mol Phylogenet Evol. 2007 Jun;43(3):891-907. doi: 10.1016/j.ympev.2006.10.018. Epub 2006 Oct 27.
6
New species of Rotundomys (Cricetinae) from the Late Miocene of Spain and its bearing on the phylogeny of Cricetulodon and Rotundomys.来自西班牙晚中新世的圆颅鼠属(仓鼠亚科)新物种及其对仓鼠形鼠属和圆颅鼠属系统发育的影响。
PLoS One. 2014 Nov 12;9(11):e112704. doi: 10.1371/journal.pone.0112704. eCollection 2014.
7
Total evidence phylogeny of platyrrhine primates and a comparison of undated and tip-dating approaches.阔鼻猴总科的全面证据系统发育分析及未定时和顶端定年方法的比较。
J Hum Evol. 2023 Jan;174:103293. doi: 10.1016/j.jhevol.2022.103293. Epub 2022 Dec 6.
8
Bayesian Morphological Clock Methods Resurrect Placoderm Monophyly and Reveal Rapid Early Evolution in Jawed Vertebrates.贝叶斯形态钟方法恢复了盾皮鱼纲的单系性,并揭示了有颌脊椎动物早期的快速进化。
Syst Biol. 2017 Jul 1;66(4):499-516. doi: 10.1093/sysbio/syw107.
9
Parsimony, not Bayesian analysis, recovers more stratigraphically congruent phylogenetic trees.简约法而非贝叶斯分析法更能重建出具有更多地层一致性的系统发育树。
Biol Lett. 2018 Jun;14(6). doi: 10.1098/rsbl.2018.0263.
10
Empirical and Bayesian approaches to fossil-only divergence times: A study across three reptile clades.仅基于化石的分歧时间的经验方法和贝叶斯方法:对三个爬行动物类群的研究。
PLoS One. 2017 Feb 10;12(2):e0169885. doi: 10.1371/journal.pone.0169885. eCollection 2017.

本文引用的文献

1
phytools 2.0: an updated R ecosystem for phylogenetic comparative methods (and other things).phytools 2.0:一个更新的用于系统发育比较方法(和其他内容)的 R 生态系统。
PeerJ. 2024 Jan 5;12:e16505. doi: 10.7717/peerj.16505. eCollection 2024.
2
TNT version 1.6, with a graphical interface for MacOS and Linux, including new routines in parallel.TNT 版本 1.6,具有适用于 MacOS 和 Linux 的图形界面,包括并行的新例程。
Cladistics. 2023 Apr;39(2):144-153. doi: 10.1111/cla.12524. Epub 2023 Jan 22.
3
Integrative Phylogenetics: Tools for Palaeontologists to Explore the Tree of Life.
整合系统发育学:古生物学家探索生命之树的工具。
Biology (Basel). 2022 Aug 7;11(8):1185. doi: 10.3390/biology11081185.
4
Using Information Theory to Detect Rogue Taxa and Improve Consensus Trees.利用信息理论检测异常分类单元并改进共识树。
Syst Biol. 2022 Aug 10;71(5):1088-1094. doi: 10.1093/sysbio/syab099.
5
Comments on the Manhattan Stratigraphic Measure.关于曼哈顿地层测量的评论。
Cladistics. 2001 Sep;17(3):285-289. doi: 10.1111/j.1096-0031.2001.tb00125.x.
6
Forum. Stratigraphic Fit to Phylogenies: A Proposed Solution.论坛。地层与系统发育的契合:一种提议的解决方案。
Cladistics. 1998 Jun;14(2):201-208. doi: 10.1111/j.1096-0031.1998.tb00333.x.
7
Weighted parsimony outperforms other methods of phylogenetic inference under models appropriate for morphology.在适用于形态学的模型下,加权简约法比其他系统发育推断方法表现更优。
Cladistics. 2018 Aug;34(4):407-437. doi: 10.1111/cla.12205. Epub 2017 Jun 4.
8
Bayesian Morphological Clock versus Parsimony: An Insight into the Relationships and Dispersal Events of Postvacuum Cricetidae (Rodentia, Mammalia).贝叶斯形态钟与简约法:对真空后仓鼠科(啮齿目,哺乳纲)的关系及扩散事件的洞察
Syst Biol. 2022 Apr 19;71(3):512-525. doi: 10.1093/sysbio/syab059.
9
Sphenodontian phylogeny and the impact of model choice in Bayesian morphological clock estimates of divergence times and evolutionary rates.楔齿蜥系统发育与贝叶斯形态钟模型选择对分歧时间和进化率估计的影响。
BMC Biol. 2020 Dec 7;18(1):191. doi: 10.1186/s12915-020-00901-5.
10
Megaevolutionary dynamics and the timing of evolutionary innovation in reptiles.爬行动物的大进化动态和进化创新的时间。
Nat Commun. 2020 Jul 3;11(1):3322. doi: 10.1038/s41467-020-17190-9.