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Excellence in Research: Genome Evolution of Amoebozoa: Resolving the deep phylogeny of Amoebozoa through genomic and proteomic features.

卓越研究：变形虫的基因组进化：通过基因组和蛋白质组特征解析变形虫的深层系统发育。

基本信息

批准号：
1831958
负责人：
Yonas Tekle
金额：
$ 50万
依托单位：
Spelman College
依托单位国家：
美国
项目类别：
Standard Grant
财政年份：
2018
资助国家：
美国
起止时间：
2018-08-15 至 2023-07-31
项目状态：
已结题

来源：
https://www.nsf.gov/awardsearch/showAward?AWD_ID=1831958&HistoricalAwards=false
关键词：
Excellence Research Genome Evolution Amoebozoa

项目摘要

Microscopic organisms have played an instrumental role in our understanding of many cellular processes. They constitute the majority of all living organisms, yet little is known about their diversity, behavior and genomics. This project focuses on amoeboid organisms belonging to the supergroup Amoebozoa. They exist in diverse natural habitats including marine, freshwater, and soil environments, and as symbionts or parasites affecting livestock and humans. Amoebozoans have long been considered simple and primitive, but recent studies have shown that they are more complex than previously thought. Despite their evolutionary and ecological significance, the biodiversity and evolution of Amoebozoans is not well understood. This project uses a combination of methods including whole genome analysis and advanced microscopy to resolve their phylogeny (how they are related to each other). The project will also examine key evolutionary features such as genome size and complexity as well as mechanisms of amoeboid movement. Knowledge of amoeboid movement has broad implications beyond Amoebozoans. It will give insights into groups that employ similar locomotive mechanisms, such as mammalian cells including macrophages and cancer cells. This project will also provide interdisciplinary training for women of African American origin and a postdoctoral fellow in advanced microscopy, genomics, proteomics, phylogenomics and microbial diversity.Recent molecular studies made significant progress in our understanding of Amoebozoan diversity and evolution. However, the deep relationships among Amoebozoan subgroups are largely unresolved and some key lineages remain unplaced in the tree of Amoebozoa. The supergroup Amoebozoa is an old lineage, estimated to have evolved from a common ancestor over a billion years ago. Resolving ancient relationships is a difficult endeavor due to limited data and other historic and algorithmic challenges. This project will use a combination of approaches including cellular proteomic and whole genome sequencing to resolve the tree of Amoebozoa. Genome sequencing will provide not only large amounts of genetic data helpful for resolving the tree of Amoebozoa but also additional genomic architectural data that can be used to study the evolution of the group. Given that Amoebozoa holds a key evolutionary position in the tree of life, resolving the tree of Amoebozoa will elucidate many fundamental evolutionary questions including the origin and evolution of life cycles, multicellularity, host-parasite interactions, amoeboid movement, and horizontal gene transfer (HGT) across domains. In addition to this, study of Amoebozoan genomes and their complexity will give insights on how genome size impacts behavior and adaptation to various ecological niches.This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.

显微生物在我们理解许多细胞过程中发挥了重要作用。它们构成了所有生物体的大多数，但对它们的多样性，行为和基因组学知之甚少。该项目的重点是属于变形虫超类群的变形虫。它们存在于不同的自然栖息地，包括海洋，淡水和土壤环境，并作为共生体或寄生虫影响牲畜和人类。长期以来，阿米巴原虫一直被认为是简单和原始的，但最近的研究表明，它们比以前认为的更复杂。尽管它们在进化和生态学上具有重要意义，但变形虫的生物多样性和进化还没有得到很好的理解。该项目使用包括全基因组分析和先进显微镜的方法来解决它们的同源性（它们如何相互关联）。该项目还将研究关键的进化特征，如基因组的大小和复杂性以及变形虫运动的机制。变形虫运动的知识具有广泛的意义，超越了变形虫。它将深入了解采用类似运动机制的群体，例如包括巨噬细胞和癌细胞在内的哺乳动物细胞。该项目还将为非洲裔美国妇女和一名博士后研究员提供先进显微镜、基因组学、蛋白质组学、生物基因组学和微生物多样性方面的跨学科培训。然而，阿米巴虫亚群之间的深层关系在很大程度上是未解决的，一些关键的谱系仍然在阿米巴虫树中未被放置。变形虫超类群是一个古老的谱系，估计是从10亿年前的共同祖先进化而来的。由于数据有限以及其他历史和算法挑战，解决古代关系是一项艰巨的奋进。该项目将使用细胞蛋白质组学和全基因组测序相结合的方法来解析阿米巴虫的树。基因组测序不仅将提供大量的遗传数据，有助于解决树的阿米巴虫，但也有额外的基因组结构数据，可用于研究组的进化。鉴于阿米巴原虫在生命树中具有关键的进化地位，解决阿米巴原虫树将阐明许多基本的进化问题，包括生命周期的起源和进化，多细胞性，宿主-寄生虫相互作用，阿米巴运动和跨域的水平基因转移（HGT）。除此之外，对阿米巴原虫基因组及其复杂性的研究将有助于深入了解基因组大小如何影响行为和对各种生态位的适应。该奖项反映了NSF的法定使命，并通过使用基金会的知识价值和更广泛的影响审查标准进行评估，被认为值得支持。

项目成果

期刊论文数量（8）

专著数量（0）

科研奖励数量（0）

会议论文数量（0）

专利数量（0）

Omics of an Enigmatic Marine Amoeba Uncovers Unprecedented Gene Trafficking from Giant Viruses and Provides Insights into Its Complex Life Cycle.

DOI：
10.3390/microbiolres14020047
发表时间：
2023-06
期刊：
Microbiology research
影响因子：
1.5
作者：
Tekle YI;Tran H;Wang F;Singla M;Udu I
通讯作者：
Udu I

Phylogenomics of Thecamoebida (Discosea, Amoebozoa) with the Description of Stratorugosa tubuloviscum gen. nov. sp. nov., a Freshwater Amoeba with a Perinuclear MTOC.

Thecamoebida（Discosea、Amoebozoa）的系统发育学及 Stratorugosa tubeluviscum gen 的描述。

DOI：
10.1016/j.protis.2018.09.002
发表时间：
2019
期刊：
Protist
影响因子：
2.5
作者：
Melton3rd,JamesT;Wood,FionaC;Branch,Jordan;Singla,Mandakini;Tekle,YonasI
通讯作者：
Tekle,YonasI

New insights on the evolutionary relationships between the major lineages of Amoebozoa.

DOI：
10.1038/s41598-022-15372-7
发表时间：
2022-07-01
期刊：
SCIENTIFIC REPORTS
影响因子：
4.6
作者：
Tekle, Yonas, I;Wang, Fang;Wood, Fiona C.;Anderson, O. Roger;Smirnov, Alexey
通讯作者：
Smirnov, Alexey

A practical implementation of large transcriptomic data analysis to resolve cryptic species diversity problems in microbial eukaryotes.