Comparison of Protein Domain RIP and Endotoxin_N in A Fungi Species, Beauveria Bassiana and Several Toxic Plant Species'

1.Abstract

Beauveria bassiana is an entomopathogenic fungus that causes a disease called white muscardine disease. The toxigenic characteristic of this fungus has lead its use for bioinsecticide to protect farmer�s crops by killing the harmful pests. DNA sequence from this organism has recently been available and analyzed (Ying, St.leger, Wang, &
Feng, 2012). About the same time of the articles' publication, another study on this fungus was conducted and investigate the protein domain inside the fungus. Among other interesting protein domain, ribosome inactivating protein (RIP) and Endotoxin_N are two domains that distinguish Bb dominantly from other closely-related fungi. Through mapping of protein domain to Gene Ontology, RIP is proved to be the key protein domain which is more significant than Endotoxin_N. RIP is deemed to be interesting because of its potential use to treat cancer. RIP has a high possibility to be used as immunotoxin to kill cancer cells. Deeper RIP analysis with blast showed that 93% hits are from plants, with the top hit is Abrus precatorious, which is characterized by Abrin in its protein structure and has been utilized as medicine for
centuries in India. Abrin is a toxin that is almost two order of magnitude more poisonous than Ricin. RIP is also abundant in Hordeum vulgare(Barley), Rosary Pea (Indian Licorice), Zea Mays (Maize), Viscum album (European mistletoe), etc. As it can be seen from the blast result, RIP is usually found in plants. This raises a notion that horizontal gene transfer might have occurred.

2.Keywords
Beauveria bassianae, Ribosome Inactiviting Protein (RIP), Endotoxin_N, Bacterial-like Toxin
3.Objective

The research's long term goal is to investigate characteristics of a fungi named Beauveria bassiana (Bb) and its potential to be utilized as medicine. The research will start by comparing the presence of Ribosome Inactivating Protein and Endotoxin in Beauveria Bassiana and several other closely-related fungi.

4.Methodology

This study comprises of 2 main steps:
1. Protein Analysis
In this stage, using a software called HMMER, a protein search will be run against a protein database. Same analysis will be done for all fungi sequences and then compared and statistically analyzed.

2. Gene Ontology Mapping
Furthermore, a mapping to Gene Ontology terms will be performed for all results from the sequences.

5.Team

Lailatul Hidayah

6.Computation plan (required processor core hours, data storage, software, etc)

Data Characteristics:

- two paired end reads that have been validated and corrected with Quake (http://www.cbcb.umd.edu/software/quake) with total size of 27.7 GB.
- EST files from several organisms with total size of around 200 MB

7.Source of funding
UISI
8.Target/outputs
publication
9.Date of usage
15/08/2016 - 14/10/2016
10.Gpu usage
use gpu
11.Supporting files
12.Created at
15/08/2016
13.Approval status
approved