Next Article in Journal / Special Issue
Genotyping-by-Sequencing in Plants
Previous Article in Journal / Special Issue
TE-Locate: A Tool to Locate and Group Transposable Element Occurrences Using Paired-End Next-Generation Sequencing Data
Open AccessReview

Why Assembling Plant Genome Sequences Is So Challenging

1
Department of Molecular Biology and Biochemistry, Faculty of Sciences, University of Malaga, 29071 Málaga, Spain
2
Bioinformatics Andalusian Platform, Bio-innovation Building, University of Malaga, 29590 Málaga, Spain
*
Author to whom correspondence should be addressed.
Biology 2012, 1(2), 439-459; https://doi.org/10.3390/biology1020439
Received: 16 July 2012 / Revised: 5 September 2012 / Accepted: 6 September 2012 / Published: 18 September 2012
(This article belongs to the Special Issue Next Generation Sequencing Approaches in Biology)
In spite of the biological and economic importance of plants, relatively few plant species have been sequenced. Only the genome sequence of plants with relatively small genomes, most of them angiosperms, in particular eudicots, has been determined. The arrival of next-generation sequencing technologies has allowed the rapid and efficient development of new genomic resources for non-model or orphan plant species. But the sequencing pace of plants is far from that of animals and microorganisms. This review focuses on the typical challenges of plant genomes that can explain why plant genomics is less developed than animal genomics. Explanations about the impact of some confounding factors emerging from the nature of plant genomes are given. As a result of these challenges and confounding factors, the correct assembly and annotation of plant genomes is hindered, genome drafts are produced, and advances in plant genomics are delayed. View Full-Text
Keywords: plant sequencing; NGS; complexity; repeats; assemblers; polyploidy; bioinformatics plant sequencing; NGS; complexity; repeats; assemblers; polyploidy; bioinformatics
MDPI and ACS Style

Claros, M.G.; Bautista, R.; Guerrero-Fernández, D.; Benzerki, H.; Seoane, P.; Fernández-Pozo, N. Why Assembling Plant Genome Sequences Is So Challenging. Biology 2012, 1, 439-459.

Show more citation formats Show less citations formats

Article Access Map by Country/Region

1
Only visits after 24 November 2015 are recorded.
Search more from Scilit
 
Search
Back to TopTop