Question

Which gene start programs does PECAAN use?

A) AUGUSTUS
B) Glimmer
C) GeneMark
D) Prodigal

Answer 1

PECAAN uses several tools for gene prediction, with Prodigal being a standard choice for prokaryotic genomes, which includes phage genome annotation.

Step-by-step explanation:

The PECAAN (Phage Evidence Collection and Annotation Network) tool is used for phage genome annotation. In the context of gene start programs, PECAAN uses several components for predicting coding sequences within phage genomes. Among the options listed:

• AUGUSTUS is a gene prediction program primarily for eukaryotic genomes.
• Glimmer is often used for microbial genomes.
• GeneMark can be used for prokaryotic and eukaryotic genomes.
• Prodigal is used specifically for prokaryotic genomes and is often standard for bacterial genome annotation. Given the focus on phage genome annotation within PECAAN, Prodigal would be among the most suitable tools listed here for gene start prediction.