Pacific Biosciences PacBio RS Single Molecule Real Time Sequencer

Pacific Biosciences PacBio RS 单分子实时测序仪

• 批准号: 8640752
• 负责人: Daniel Soleyman Rokhsar
• 金额: $ 60万
• 依托单位: UNIVERSITY OF CALIFORNIA BERKELEY
• 依托单位国家: 美国
• 财政年份: 2014
• 资助国家: 美国
• 起止时间: 2014-08-01 至 2015-07-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8640752
• 关键词: Characteristics; Core Facility; DNA Sequencing Facility; Expressed Sequence Tags; Funding; Gene Expression Profile; Genetic; Genome; Genome Mappings; Genomics; High-Throughput DNA Sequencing; Human Biology; Human Development; Investigation; Ions; Laboratories; Length; Malignant Neoplasms; Mammalian Cell; Methodology; Modeling; Multigene Family; Nutritional; Organism; Pattern; Perception; Predisposition; RNA Splicing; Reading; Research Personnel; Resources; Science; Sensory; System; Technology; Time; Toxic Environmental Substances; United States National Institutes of Health; genetic analysis; genome sequencing; human disease; instrument; mRNA Precursor; novel; single molecule

DESCRIPTION (provided by applicant): The Pacific Biosciences PacBio RS sequencing system will be used for high-throughput DNA sequencing in applications demanding long-range sequence information at the scale of tens of kilobases. The technology and characteristics of this sequencing technology are notably different than for other sequencing methodologies. In particular, the ability to obtain long sequence reads affords several critical advantages for a number of applications, including (1) the sequencing of novel genomes, (2) EST and transcriptome characterization in organisms lacking a sequenced or well-mapped genome, (3) the analysis of alternative pre-mRNA splicing, (4) amplicon sequencing. In addition to longer read lengths, the PacBio sequencing technology also provides rapid turnaround time. The PacBio RS will be applied to a diverse array of NIH-funded projects as well as other projects of high relevance to biomedical science, including the characterization of multigene families involved in sensory perception; the elucidation of the patterns and mechanisms of alternative pre-mRNA splicing; the characterization of genomes of genetic and evolutionary models of human development and disease; an analysis of the genetic loci associated with cancer; and an investigation of the susceptibility of mammalian cells to nutritional ions and environmental toxins. There are currently no PacBio sequencers on the UC Berkeley campus. The proposed instrument would be located close to its users as part of the Coates Genome Sequencing Center, and managed as part of the unified campus-wide sequencing core facility and associated Computational Genomics Resource Laboratory. Acquisition of this instrument will support researchers pursuing these projects, which promise to illuminate the fundamental mechanisms underlying human biology and disease.

描述(申请人提供)：太平洋生物科学公司的PacBio RS测序系统将用于需要数万个碱基规模的远程序列信息的应用中的高通量DNA测序。这种测序技术的技术和特点与其他测序方法有显著的不同。特别是，获得长序列读数的能力为许多应用提供了几个关键的优势，包括(1)新基因组的测序，(2)在缺乏测序或良好图谱的基因组中的EST和转录组特征，(3)替代前mRNA剪接的分析，(4)扩增子测序。除了更长的读取长度，PacBio测序技术还提供了快速的周转时间。PacBio RS将被应用于NIH资助的各种项目以及其他与生物医学科学高度相关的项目，包括描述参与感官感知的多基因家族的特征；阐明替代的Pre-RNA剪接的模式和机制；描述人类发育和疾病的遗传和进化模型的基因组特征；分析与癌症相关的遗传位点；以及调查哺乳动物细胞对营养离子和环境毒素的易感性。加州大学伯克利分校目前没有PacBio测序仪。拟议的仪器将设在靠近其用户的地方，作为科茨基因组测序中心的一部分，并作为统一的全校园测序核心设施和相关的计算基因组资源实验室的一部分进行管理。这一仪器的获得将支持从事这些项目的研究人员，这些项目有望阐明人类生物学和疾病背后的基本机制。

项目成果

Chromosome evolution and the genetic basis of agronomically important traits in greater yam.

• DOI: 10.1038/s41467-022-29114-w
• 发表时间: 2022-04-14
• 期刊: Nature communications
• 影响因子: 16.6

Contact-dependent traits in Pseudomonas syringae B728a.

• DOI: 10.1371/journal.pone.0241655
• 发表时间: 2021
• 期刊: PloS one
• 影响因子: 3.7
• 作者: Hernandez MN;Lindow SE
• 通讯作者: Lindow SE

Transgene-independent heredity of RdDM-mediated transcriptional gene silencing of endogenous genes in rice.

• DOI: 10.1111/pbi.12934
• 发表时间: 2018-12
• 期刊: Plant biotechnology journal
• 影响因子: 13.8
• 作者: Wakasa Y;Kawakatsu T;Harada T;Takaiwa F
• 通讯作者: Takaiwa F

Free Glycans Derived From O-mannosylated Glycoproteins Suggest the Presence of an O-glycoprotein Degradation Pathway in Yeast

O-甘露糖基化糖蛋白衍生的游离聚糖表明酵母中存在 O-糖蛋白降解途径

• DOI: 10.1074/jbc.ra119.009491
• 发表时间: 2019
• 期刊: J Biol Chem
• 影响因子: 4.8
• 作者: Hirayama H;Matsuda T;Tsuchiya Y;Oka R;Seino J ;Huang C;Nakajima K ;Noda Y;Shichino Y;Iwasaki S ;Suzuki T
• 通讯作者: Suzuki T

Codon bias confers stability to human mRNAs

• DOI: 10.15252/embr.201948220
• 发表时间: 2019-11-05
• 期刊: EMBO REPORTS
• 影响因子: 7.7
• 作者: Hia, Fabian;Yang, Sheng Fan;Takeuchi, Osamu
• 通讯作者: Takeuchi, Osamu