Hodzic Jasin, Gurbeta Lejla, Omanovic-Miklicanin Enisa, Badnjevic Almir
Department of Genetics and Bioengineering, International Burch University, Sarajevo, Bosnia and Herzegovina.
Verlab Ltd, Sarajevo, Bosnia and Herzegovina.
Med Arch. 2017 Aug;71(4):288-292. doi: 10.5455/medarh.2017.71.288-292.
Major advancements in DNA sequencing methods introduced in the first decade of the new millennium initiated a rapid expansion of sequencing studies, which yielded a tremendous amount of DNA sequence data, including whole sequenced genomes of various species, including plants. A set of novel sequencing platforms, often collectively named as "next-generation sequencing" (NGS) completely transformed the life sciences, by allowing extensive throughput, while greatly reducing the necessary time, labor and cost of any sequencing endeavor.
of this paper is to present an overview NGS platforms used to produce the current compendium of published draft genomes of various plants, namely the Roche/454, ABI/SOLiD, and Solexa/Illumina, and to determine the most frequently used platform for the whole genome sequencing of plants in light of genotypization of immortelle plant.
45 papers were selected (with 47 presented plant genome draft sequences), and utilized sequencing techniques and NGS platforms (Roche/454, ABI/SOLiD and Illumina/Solexa) in selected papers were determined. Subsequently, frequency of usage of each platform or combination of platforms was calculated.
Illumina/Solexa platforms are by used either as sole sequencing tool in 40.42% of published genomes, or in combination with other platforms - additional 48.94% of published genomes, followed by Roche/454 platforms, used in combination with traditional Sanger sequencing method (10.64%), and never as a sole tool. ABI/SOLiD was only used in combination with Illumina/Solexa and Roche/454 in 4.25% of publications.
Illumina/Solexa platforms are by far most preferred by researchers, most probably due to most affordable sequencing costs. Taking into consideration the current economic situation in the Balkans region, Illumina Solexa is the best (if not the only) platform choice if the sequencing of immortelle plant (Helichrysium arenarium) is to be performed by the researchers in this region.
新千年的第一个十年引入的DNA测序方法取得了重大进展，引发了测序研究的迅速扩展，产生了大量的DNA序列数据，包括各种物种（包括植物）的全基因组序列。一组新颖的测序平台，通常统称为“下一代测序”（NGS），通过实现高通量，同时大大减少了任何测序工作所需的时间、人力和成本，彻底改变了生命科学。
本文旨在概述用于生成当前各种植物已发表基因组草图汇编的NGS平台，即罗氏/454、ABI/SOLiD和Solexa/Illumina，并根据不朽菊植物的基因分型确定植物全基因组测序最常用的平台。
选择了45篇论文（共呈现47个植物基因组草图序列），并确定了所选论文中使用的测序技术和NGS平台（罗氏/454、ABI/SOLiD和Illumina/Solexa）。随后，计算了每个平台或平台组合的使用频率。
Illumina/Solexa平台在40.42%的已发表基因组中用作唯一的测序工具，或与其他平台联合使用——在另外48.94%的已发表基因组中，其次是罗氏/454平台，与传统桑格测序方法联合使用（10.64%），且从未作为唯一工具使用。ABI/SOLiD仅在4.25%的出版物中与Illumina/Solexa和罗氏/454联合使用。
Illumina/Solexa平台是研究人员目前最青睐的平台，很可能是因为测序成本最为低廉。考虑到巴尔干地区目前的经济状况，如果该地区的研究人员要对不朽菊植物（沙生蜡菊）进行测序，Illumina Solexa是最佳（如果不是唯一）的平台选择。
