ORFograph: search for novel insecticidal protein genes in genomic and metagenomic assembly graphs.

ABSTRACT:

Background

Since the prolonged use of insecticidal proteins has led to toxin resistance, it is important to search for novel insecticidal protein genes (IPGs) that are effective in controlling resistant insect populations. IPGs are usually encoded in the genomes of entomopathogenic bacteria, especially in large plasmids in strains of the ubiquitous soil bacteria, Bacillus thuringiensis (Bt). Since there are often multiple similar IPGs encoded by such plasmids, their assemblies are typically fragmented and many IPGs are scattered through multiple contigs. As a result, existing gene prediction tools (that analyze individual contigs) typically predict partial rather than complete IPGs, making it difficult to conduct downstream IPG engineering efforts in agricultural genomics.

Metho

SUBMITTER: Dvorkina T 

PROVIDER: S-EPMC8240309 | biostudies-literature | 2021 Jun

REPOSITORIES: biostudies-literature