Comparative genome mapping of the Anopheles species cluster

按蚊物种簇的比较基因组作图

基本信息

  • 批准号:
    8637289
  • 负责人:
  • 金额:
    $ 22.53万
  • 依托单位:
  • 依托单位国家:
    美国
  • 项目类别:
  • 财政年份:
    2014
  • 资助国家:
    美国
  • 起止时间:
    2014-01-15 至 2015-12-31
  • 项目状态:
    已结题

项目摘要

DESCRIPTION (provided by applicant): Targeting genes responsible for vectorial capacity is a novel approach to controlling infectious diseases. To develop a better understanding of genetic determinants of vectorial capacity and with support from vector biologists and members of the malaria community, NHGRI and NIAID have funded the sequencing of the genomes and transcriptomes of 16 Anopheles species (http://www.broadinstitute.org/annotation/genome/anopheles). With genome sequences becoming available, researchers now have the unique opportunity to perform comparative analysis for inferring evolutionary changes relevant to vector ability. However, success of these comparative genomic analyses will be limited, and inferences about evolution of the vectorial capacity traits will be less informative if researchers deal with numerous sequencing scaffolds rather than with chromosome-based genome assemblies. The major goal of this R21 project is to develop chromosome-based reference genome assemblies for three major malaria vectors: An. arabiensis, An. stephensi, and An. albimanus. Draft genome assemblies are available for these species (https://olive.broadinstitute.org/comparisons/anopheles.1). Our project is timely because it will create crucial genomic tools for the newly sequenced Anopheles species. The project is innovative because it will use the automated multicolor fluorescent in situ hybridizatio (AM-FISH) and automated microscopic analysis. We will, for the first time, perform phylogenetic analysis of anopheline mosquitoes by genome-wide gene order analysis and gain important insights into patterns and mechanisms of chromosomal rearrangements. The availability of state-of-the-art equipment and the expertise of the PI in cytogenetics and comparative genomic analysis will ensure successful achievement of the project's goal. The proposal has three specific aims. Specific Aim 1. Physically map sequencing scaffolds to chromosomes of An. arabiensis, An. stephensi, and An. albimanus. We will place and orient scaffolds to polytene chromosomes by AM-FISH, thus, creating chromosome-based reference genome assemblies for the species belonging to the series Pyretophorus (subgenus Cellia), series Neocellia (subgenus Cellia), and series Albimanus (subgenus Nyssorhynchus), respectively. Specific Aim 2. Reconstruct genome-scale rearrangement phylogeny of genus Anopheles. We will identify breakpoints of all fixed inversions in An. arabiensis and will refine the chromosomal phylogeny in the An. gambiae complex using An. stephensi and An. albimanus as outgroup species. Specific Aim 3. Determine the pattern and mechanisms of chromosome evolution in genus Anopheles. We will test the hypotheses that (i) the X chromosome has the highest rate of inversion fixation despite the paucity of inversion polymorphisms, and (ii) inversions have chromosome-specific and species-specific mechanisms of origin and rates of fixation. !
描述(由申请人提供):靶向负责载体能力的基因是控制传染病的新方法。为了更好地了解病媒能力的遗传决定因素,在病媒生物学家和疟疾界成员的支持下,国家人类基因组研究所和国家疟疾研究所资助了16种按蚊的基因组和转录组测序(http://www.broadinstitute.org/annotation/genome/anopheles)。随着基因组序列的可用,研究人员现在有独特的机会进行比较分析,以推断与载体能力相关的进化变化。然而,这些比较基因组分析的成功将是有限的,如果研究人员处理大量的测序支架,而不是与染色体为基础的基因组组装的矢量能力性状的进化的推论将是信息量较少。这个R21项目的主要目标是为三种主要的疟疾媒介开发基于染色体的参考基因组组装:arabiensis、阿拉伯隐翅虫An. stephensi和An. albimanus。可获得这些物种的基因组组装草图(https://olive.broadinstitute.org/comparisons/anopheles.1)。我们的项目是及时的,因为它将为新测序的按蚊物种创造关键的基因组工具。该项目是创新的,因为它将使用自动荧光原位杂交(AM-FISH)和自动显微镜分析。我们将首次通过全基因组基因顺序分析对按蚊进行系统发育分析,并获得对染色体重排模式和机制的重要见解。最先进的设备和PI在细胞遗传学和比较基因组分析方面的专业知识的可用性将确保成功实现该项目的目标。该提案有三个具体目标。具体目标1.将测序支架物理映射到An的染色体。arabiensis、阿拉伯隐翅虫An. stephensi和An. albimanus。我们将通过AM-FISH将支架放置并定向到多线染色体,从而分别为属于Pyretophorus系列(Cellia亚属),Neocellia系列(Cellia亚属)和Albimanus系列(Nyssorhynchus亚属)的物种创建基于染色体的参考基因组组装。具体目标2。构建按蚊属基因组规模重排系统学。我们将确定An中所有固定反演的断点。arabiensis,并将完善染色体的同源性在一个。gambiae complex使用An. stephensi和安氏隐翅虫An. albimanus为外群种。具体目标3。确定按蚊属染色体进化的模式和机制。我们将检验以下假设:(i)尽管缺乏倒位多态性,但X染色体具有最高的倒位固定率;(ii)倒位具有染色体特异性和物种特异性的起源机制和固定率。!

项目成果

期刊论文数量(0)
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专利数量(0)

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IGOR V SHARAKHOV其他文献

IGOR V SHARAKHOV的其他文献

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{{ truncateString('IGOR V SHARAKHOV', 18)}}的其他基金

Haploid-resolved genome assemblies for the arboviral vectors Aedes aegypti and Aedes mascarensis
虫媒病毒载体埃及伊蚊和马斯卡伊蚊的单倍体解析基因组组装
  • 批准号:
    10352741
  • 财政年份:
    2021
  • 资助金额:
    $ 22.53万
  • 项目类别:
A chromosome-level genome assembly for the major African malaria vector Anopheles gambiae
主要非洲疟疾载体冈比亚按蚊的染色体水平基因组组装
  • 批准号:
    10343852
  • 财政年份:
    2021
  • 资助金额:
    $ 22.53万
  • 项目类别:
Haploid-resolved genome assemblies for the arboviral vectors Aedes aegypti and Aedes mascarensis
虫媒病毒载体埃及伊蚊和马斯卡伊蚊的单倍体解析基因组组装
  • 批准号:
    10495269
  • 财政年份:
    2021
  • 资助金额:
    $ 22.53万
  • 项目类别:
A chromosome-level genome assembly for the major African malaria vector Anopheles gambiae
主要非洲疟疾载体冈比亚按蚊的染色体水平基因组组装
  • 批准号:
    10192080
  • 财政年份:
    2021
  • 资助金额:
    $ 22.53万
  • 项目类别:
Highly finished chromosome-based genome assembly for Anopheles gambiae
高度完成的冈比亚按蚊染色体基因组组装
  • 批准号:
    8095936
  • 财政年份:
    2011
  • 资助金额:
    $ 22.53万
  • 项目类别:
Highly finished chromosome-based genome assembly for Anopheles gambiae
高度完成的冈比亚按蚊染色体基因组组装
  • 批准号:
    8227943
  • 财政年份:
    2011
  • 资助金额:
    $ 22.53万
  • 项目类别:
Chromosomal Phylogeny of the Anopheles gambiae Complex
冈比亚按蚊复合体的染色体系统发育
  • 批准号:
    7570777
  • 财政年份:
    2009
  • 资助金额:
    $ 22.53万
  • 项目类别:
Chromosomal Phylogeny of the Anopheles gambiae Complex
冈比亚按蚊复合体的染色体系统发育
  • 批准号:
    7754863
  • 财政年份:
    2009
  • 资助金额:
    $ 22.53万
  • 项目类别:
Population cytogenetics of Anopheles moucheti and Anopheles nili
穆切按蚊和尼利按蚊的群体细胞遗传学
  • 批准号:
    7650165
  • 财政年份:
    2008
  • 资助金额:
    $ 22.53万
  • 项目类别:
Comparative genomics of the 2La inversion breakpoints in Anopheles gambiae
冈比亚按蚊 2La 反转断点的比较基因组学
  • 批准号:
    7470389
  • 财政年份:
    2008
  • 资助金额:
    $ 22.53万
  • 项目类别:

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确定沃尔巴克氏体对埃及伊蚊的抗病毒作用
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