The prevalence of genetic introgression in speciation

物种形成中基因渗入的普遍性

基本信息

批准号：
10457556
负责人：
Daniel Matute
金额：
$ 6.21万
依托单位：
UNIV OF NORTH CAROLINA CHAPEL HILL
依托单位国家：
美国
项目类别：
财政年份：
2017
资助国家：
美国
起止时间：
2017-09-01 至 2023-07-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10457556
关键词：
Address Admixture Africa Alleles Animals Area Behavior Behavioral Behavioral Genetics Biological Models Chromosome Mapping Clustered Regularly Interspaced Short Palindromic Repeats Communities Comparative Study Complex Computing Methodologies Coupled Data Disease Drosophila genus Evolution Female Frequencies Gene Exchanges Genes Genetic Genetic Recombination Genetic Variation Genome Genomic Segment Genomics Geography Habitats Health Human Hybrids Knowledge Laboratories Maps Measurable Measures Mediating Methods Modeling Molecular Genetics Natural Selections Natural experiment Nature Organism Outcome Partner in relationship Pattern Phenotype Population Prevalence Process Protocols documentation Recording of previous events Resolution Resources Source Spatial Distribution Techniques Temperature Testing Time Transgenic Organisms Validation Variant X Chromosome Zimbabwe admixture mapping autosome experimental study fly follow-up gene function gene replacement genetic manipulation genetic variant genome editing genomic tools innovation interest novel novel strategies preference reproductive tool trait

项目摘要

Background: The importance of genetic exchange between species (i.e. introgression of genes from one species into another through hybrid intermediates) is a constant subject of debate among evolutionary biologists. While some claim genetic exchange is pervasive, others claim that it is extremely rare. Currently, there is little data quantitatively supporting either of these scenarios. Broad, long-term objective: The proposed study of naturally occurring hybrid zones will quantify the prevalence of genetic exchange between species to understand the frequency and evolutionary consequences of gene exchange. The proposal takes advantage of these natural experiments in hybrid zones to find admixed genomes with which I can map the genetics of complex behavior traits that differ between the hybridizing species. Since genetic mapping of behavior traits has proven very difficult by conventional means, admixture mapping provides a unique opportunity to make progress on these important questions. Specific aims: Aim 1 of the study is to map the prevalence of introgression in six natural hybrid zones, four of which are documented here for the first time. Aim 2 will used admixed flies from a hybrid zone to map genes underlying the ecologically important trait of temperature preference. Aim 3 will use admixed flies from another hybrid zone to map genes underlying the complex behavioral trait of mate preference. Method: Fruit flies from the genus Drosophila can be collected in their natural habitat and also maintained under laboratory conditions, and have an unmatched arsenal of molecular genetic and genomic tools. This proposal presents a novel model for identifying introgressed alleles in the genome, an approach that is only feasible in hybridizing organisms for which both parental species have high quality genome assemblies. The genes identified in these admixture analyses will be functionally validated with CRISPR-mediated gene replacements. Preliminary results for admixture mapping and genome editing are both promising. Health-relatedness: Admixture mapping in humans is a primary approach used for the identification of disease-causing gene variants. However, follow up experiments to test the function of genes correlated with disease cannot be performed in humans. Admixture mapping protocols have therefore never been validated end-to-end from the population level at which variants correlated with disease are identified, to the functional molecular genetic level where the phenotypic state is manifested. This proposal is innovative because it develops new computational methods to identify genomic regions with complex ancestry, and then connects these genomic patterns to measurable phenotypic differences via genome editing. Impact: The results from this study will provide the first broad view of patterns of introgression in cases where species interbreed in nature, and will leverage those patterns of admixture to dissect the genetic basis of behavioral differences between species that cause reproductive isolation.

背景：物种之间遗传交换的重要性（即从一个基因渗入基因物种通过混合中间体进入另一个物种）是进化中的一个持续争论的主题生物学家。尽管有些人声称遗传交换无处不在，但另一些人则声称这极为罕见。现在，几乎没有数据支持这两种情况。广泛的长期目标：拟议的对自然发生的杂种区的研究将量化物种之间遗传交换的流行率了解频率和进化后果基因交换。该提案利用这些自然实验在混合区域中找到混合物我可以用这些基因组来绘制杂交之间不同的复杂行为特征的遗传学物种。由于行为特征的遗传映射已被常规手段证明非常困难，因此混合映射提供了一个独特的机会，可以在这些重要问题上取得进展。具体目的：该研究的目标1是绘制六个自然杂种区域中渗入的流行率，其中四个这是第一次记录在这里。 AIM 2将使用来自混合区域的混合果蝇到映射基因温度偏好的生态学特征是基本的。 AIM 3将使用另一个的混合苍蝇杂交区以绘制伴侣偏好的复杂行为特征的基因。方法：果蝇属的果蝇可以在其自然栖息地中收集，也可以维持在实验室条件下，具有无与伦比的分子遗传和基因组工具的武器库。这提案提出了一个新型模型，用于识别基因组中的渗流等位基因，一种方法是在杂交生物体中可行的两个亲本物种都有高质量的基因组组件。这在这些混合分析中鉴定的基因将在功能上用CRISPR介导的基因验证替换。混合映射和基因组编辑的初步结果都是有希望的。与健康相关性：人类中的混合映射是用于识别的主要方法引起疾病的基因变异。但是，后续实验测试与疾病不能在人类中进行。因此，混合映射协议从未得到验证从人口水平到端到端，鉴定出与疾病相关的变体水平，与功能表型状态表现出的分子遗传水平。该提议具有创新性，因为它开发新的计算方法来识别具有复杂血统的基因组区域，然后连接这些基因组模式通过基因组编辑来实现可测量的表型差异。影响：这项研究的结果将提供首个在渗入模式的广泛视野物种在自然界中杂交，并将利用那些混合模式来剖析引起生殖隔离的物种之间的行为差异。

项目成果

期刊论文数量（19）

专著数量（0）

科研奖励数量（0）

会议论文数量（0）

专利数量（0）

A narrow window for geographic cline analysis using genomic data: Effects of age, drift, and migration on error rates.

使用基因组数据进行地理谱系分析的窄窗口：年龄、漂移和迁移对错误率的影响。

DOI：
10.1111/1755-0998.13428
发表时间：
2021
期刊：
Molecular ecology resources
影响因子：
7.7
作者：
Jofre,GastonI;Rosenthal,GilG
通讯作者：
Rosenthal,GilG

The Role of Transposable Elements in Speciation.

DOI：
10.3390/genes9050254
发表时间：
2018-05-15
期刊：
Genes
影响因子：
3.5
作者：
Serrato-Capuchina A;Matute DR
通讯作者：
Matute DR

Paracoccidioides brasiliensis Isolated from Nine-Banded Armadillos (Dasypus novemcinctus) Reveal Population Structure and Admixture in the Amazon Basin.

DOI：
10.3390/jof7010054
发表时间：
2021-01-15
期刊：
Journal of fungi (Basel, Switzerland)
影响因子：
0
作者：
Bagagli E;Matute DR;Garces HG;Tenório BG;Garces AG;Alves LGB;Yamauchi DH;Hrycyk MF;Barker BM;Teixeira MM
通讯作者：
Teixeira MM

The ability of Drosophila hybrids to locate food declines with parental divergence.

果蝇杂交体寻找食物的能力随着亲本分歧而下降。