Nanopore Sequencing Comes to Plant Genomes

Author: Nancy Rosenbaum Hofmann; Affiliations: N/A; Socorro County, New Mexico, USA

The next generation of next-generation sequencing is upon us. Third-generation sequencing aims to provide long stretches of sequence – ultimately to the chromosome level – at bargain basement prices (低价格). Progress is being made toward those goals with the emergence of long-read sequencing techniques and new methods for scaffolding, as well as rapidly developing software for assembling and interpreting the sequences (reviewed in Jiao and Schneeberger, 2017; Bolger et al., 2017). The application of these new technologies to plant genomes has been challenging, in part because of the large size and highly repetitive nature of many plant genomes. New work from Schmidt, Vogel, Denton et al. (2017)  reports on the state of the art, using long-read technology to sequence the genome of a wild tomato (Solanum pennellii) accession.

下一代测序（NGS）的下一代已经来临。三代测序旨向提供长片段的测序，最终达到染色体级别，并且以一个相对低廉的价格。长read测序技术、新的scaffolding方法及快速发展的序列分析、组装软件已经加速了实现这些目标的进程。然而这些新的技术在应用到植物基因组上面临着一些挑战，部分是因为植物基因组比较大、且重复序列含量较高。来自Schmidt et al. 2017年的工作使用长read测序技术对野生番茄进行了基因组测序。

（作者是科学编辑（Science Editor），本文主要介绍了之前发表在Plant Cell上番茄基因组测序的技术－－Oxford Nanopore Sequencing 纳米孔测序技术。）

个人简介：1996年，获斯沃斯莫尔学院生物学学士；2005年，获加州大学戴维斯分校细胞生物学与分子生物学博士，论文题目为“Protein Targeting in Chloroplasts”。

个人简历：

Plant Editors联合创始人和主编. (2009-present). Edit manuscripts, grant proposals, and scientific documents in the field of Plant Biology.

The Plant Cell杂志科学编辑. (2008-present). Edit manuscripts with respect to presentation of scientific content, compliance with journal policies, and presentation for a broad readership. Write press releases and In Brief articles highlighting selected papers.

加州大学戴维斯分校博士后研究员. (2005). Continued studies begun as dissertation research on chloroplast protein targeting in Dr. Steven Theg’s laboratory.

费城宾夕法尼亚大学助理研究员. (1996-1998). Research technician in the laboratories of Dr. Stuart Moss and Dr. Gregory Kopf, in the Center for Research on Reproduction and Women’s Health. Studied the expression and localization of hexokinase in mouse sperm cells.

doi: 10.1105/tpc.17.00863