Comparing de novo transcriptome assembly tools in di- and autotetraploid non-model plant species.

ABSTRACT:

Background

Polyploidy is very common in plants and can be seen as one of the key drivers in the domestication of crops and the establishment of important agronomic traits. It can be the main source of genomic repatterning and introduces gene duplications, affecting gene expression and alternative splicing. Since fully sequenced genomes are not yet available for many plant species including crops, de novo transcriptome assembly is the basis to understand molecular and functional mechanisms. However, in complex polyploid plants, de novo transcriptome assembly is challenging, leading to increased rates of fused or redundant transcripts. Since assemblers were developed mainly for diploid organisms, they may not well suited for polyploids. Also, comparative evaluations of these tools on

SUBMITTER: Madritsch S 

PROVIDER: S-EPMC7986043 | biostudies-literature | 2021 Mar

REPOSITORIES: biostudies-literature