Democratizing long-read genome assembly

被引:1
|
作者
Kirsche, Melanie [1 ]
Schatz, Michael C. [1 ,2 ]
机构
[1] Johns Hopkins Univ, Dept Comp Sci, Baltimore, MD 21205 USA
[2] Johns Hopkins Univ, Dept Biol, Baltimore, MD 21205 USA
基金
美国国家科学基金会;
关键词
D O I
10.1016/j.cels.2021.09.010
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
De novo assembled genomes serve as the backbone for modern genomics. In an article in this issue of Cell Systems, Ekim et al. present the mdBG assembler that can assemble genomes 100-fold faster than previous methods, including a human genome in under 10 min, which unlocks pan-genomics for many species.
引用
收藏
页码:945 / 947
页数:3
相关论文
共 50 条
  • [41] Bioinformatic Annotation of Transposon DNA Processing Genes on the Long-Read Genome Assembly of Caenorhabditis elegans
    Arata, Yukinobu
    Jurica, Peter
    Parrish, Nicholas
    Sako, Yasushi
    BIOINFORMATICS AND BIOLOGY INSIGHTS, 2024, 18
  • [42] Long-read genome sequence assembly provides insight into ongoing retroviral invasion of the koala germline
    Hobbs, Matthew
    King, Andrew
    Salinas, Ryan
    Chen, Zhiliang
    Tsangaras, Kyriakos
    Greenwood, Alex D.
    Johnson, Rebecca N.
    Belov, Katherine
    Wilkins, Marc R.
    Timms, Peter
    SCIENTIFIC REPORTS, 2017, 7
  • [43] Long-read genome sequence assembly provides insight into ongoing retroviral invasion of the koala germline
    Matthew Hobbs
    Andrew King
    Ryan Salinas
    Zhiliang Chen
    Kyriakos Tsangaras
    Alex D. Greenwood
    Rebecca N. Johnson
    Katherine Belov
    Marc R. Wilkins
    Peter Timms
    Scientific Reports, 7
  • [44] Long-read sequence assembly: a technical evaluation in barley
    Mascher, Martin
    Wicker, Thomas
    Jenkins, Jerry
    Plott, Christopher
    Lux, Thomas
    Koh, Chu Shin
    Ens, Jennifer
    Gundlach, Heidrun
    Boston, Lori B.
    Tulpova, Zuzana
    Holden, Samuel
    Hernandez-Pinzon, Inmaculada
    Scholz, Uwe
    Mayer, Klaus F. X.
    Spannagl, Manuel
    Pozniak, Curtis J.
    Sharpe, Andrew G.
    Simkova, Hana
    Moscou, Matthew J.
    Grimwood, Jane
    Schmutz, Jeremy
    Stein, Nils
    PLANT CELL, 2021, 33 (06): : 1888 - 1906
  • [45] Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome
    Wenger, Aaron M.
    Peluso, Paul
    Rowell, William J.
    Chang, Pi-Chuan
    Hall, Richard J.
    Concepcion, Gregory T.
    Ebler, Jana
    Fungtammasan, Arkarachai
    Kolesnikov, Alexey
    Olson, Nathan D.
    Topfer, Armin
    Alonge, Michael
    Mahmoud, Medhat
    Qian, Yufeng
    Chin, Chen-Shan
    Phillippy, Adam M.
    Schate, Michael C.
    Myers, Gene
    DePristo, Mark A.
    Ruan, Jue
    Marschall, Tobias
    Sedlazeck, Fritz J.
    Zook, Justin M.
    Li, Heng
    Koren, Sergey
    Carroll, Andrew
    Rank, David R.
    Hunkapiller, Michael W.
    NATURE BIOTECHNOLOGY, 2019, 37 (10) : 1155 - +
  • [46] Identification of a terpene synthase arsenal using long-read sequencing and genome assembly of Aspergillus wentii
    Olumakaiye, Richard
    Corre, Christophe
    Alberti, Fabrizio
    BMC GENOMICS, 2024, 25 (01):
  • [47] An improved draft genome assembly of Meloidogyne graminicola IARI strain using long-read sequencing
    Somvanshi, Vishal Singh
    Dash, Manoranjan
    Bhat, Chaitra G.
    Budhwar, Roli
    Godwin, Jeffrey
    Shukla, Rohit N.
    Patrignani, Andrea
    Schlapbach, Ralph
    Rao, Uma
    GENE, 2021, 793
  • [48] Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome
    Aaron M. Wenger
    Paul Peluso
    William J. Rowell
    Pi-Chuan Chang
    Richard J. Hall
    Gregory T. Concepcion
    Jana Ebler
    Arkarachai Fungtammasan
    Alexey Kolesnikov
    Nathan D. Olson
    Armin Töpfer
    Michael Alonge
    Medhat Mahmoud
    Yufeng Qian
    Chen-Shan Chin
    Adam M. Phillippy
    Michael C. Schatz
    Gene Myers
    Mark A. DePristo
    Jue Ruan
    Tobias Marschall
    Fritz J. Sedlazeck
    Justin M. Zook
    Heng Li
    Sergey Koren
    Andrew Carroll
    David R. Rank
    Michael W. Hunkapiller
    Nature Biotechnology, 2019, 37 : 1155 - 1162
  • [49] A detailed guide to assessing genome assembly based on long-read sequencing data using Inspector
    Guo, Yan
    Song, Yuwei
    Jiang, Limin
    Chen, Yu
    Ceccarelli, Michele
    Gao, Min
    Chong, Zechen
    NATURE PROTOCOLS, 2025,
  • [50] Distributed-Memory Parallel Contig Generation for De Novo Long-Read Genome Assembly
    Guidi, Giulia
    Raulet, Gabriel
    Rokhsar, Daniel
    Oliker, Leonid
    Yelick, Katherine
    Buluc, Aydin
    51ST INTERNATIONAL CONFERENCE ON PARALLEL PROCESSING, ICPP 2022, 2022,