A searchable database for the genome of Phomopsis longicolla (isolate MSPL 10-6).

Omar Darwish,Shuxian Li,Nadim W Alkharouf,Zane May,Benjamin Matthews

doi:10.6026/97320630012233

Abstract

Phomopsis longicolla (syn. Diaporthe longicolla) is an important seed-borne fungal pathogen that primarily causes Phomopsis seed decay (PSD) in most soybean production areas worldwide. This disease severely decreases soybean seed quality by reducing seed viability and oil quality, altering seed composition, and increasing frequencies of moldy and/or split beans. To facilitate investigation of the genetic base of fungal virulence factors and understand the mechanism of disease development, we designed and developed a database for P. longicolla isolate MSPL 10-6 that contains information about the genome assemblies (contigs), gene models, gene descriptions and GO functional ontologies. A web-based front end to the database was built using ASP.NET, which allows researchers to search and mine the genome of this important fungus. This database represents the first reported genome database for a seed borne fungal pathogen in the Diaporthe– Phomopsis complex. The database will also be a valuable resource for research and agricultural communities. It will aid in the development of new control strategies for this pathogen.Availability: http://bioinformatics.towson.edu/Phomopsis_longicolla/HomePage.aspx

Highlights

The genome of a P. longicolla isolate MSPL 10-6 which was isolated from field-grown soybean seed in Mississippi, USA was sequenced [9]
Microsoft Visual Studio 2013 was used to design and implement the web pages, which were programmed using ASP.NET framework 4.0 with C# programming language. Both the database and the website are on the same server at Towson University in Baltimore, MD, USA
The database stores the assembly of the P. longicolla MSPL 10-6 genome (108 scaffolds) [9] and their annotations

Summary

Introduction

Diaporthe longicolla) is an important seedborne fungal pathogen that primarily causes Phomopsis seed decay (PSD) in most soybean production areas worldwide [1, 2]. The genome of a P. longicolla isolate MSPL 10-6 which was isolated from field-grown soybean seed in Mississippi, USA was sequenced [9]. Development of a database for P. longicolla isolate MSPL 10-6 that contains information about the genome assemblies (contigs), gene models, gene descriptions and GO functional ontologies will allow

Results

Conclusion