NLR-parser: rapid annotation of plant NLR complements.

ABSTRACT:

Motivation

The repetitive nature of plant disease resistance genes encoding for nucleotide-binding leucine-rich repeat (NLR) proteins hampers their prediction with standard gene annotation software. Motif alignment and search tool (MAST) has previously been reported as a tool to support annotation of NLR-encoding genes. However, the decision if a motif combination represents an NLR protein was entirely manual.

Results

The NLR-parser pipeline is designed to use the MAST output from six-frame translated amino acid sequences and filters for predefined biologically curated motif compositions. Input reads can be derived from, for example, raw long-read sequencing data or contigs and scaffolds coming from plant genome projects. The output is a tab-separated file with information o

SUBMITTER: Steuernagel B 

PROVIDER: S-EPMC4426836 | biostudies-literature | 2015 May

REPOSITORIES: biostudies-literature