Towards cloning of a novel SCN resistance locus using de novo genome assembly and fosmid screening

Glycine soja, the wild annual ancestor of soybean, has great potential to be used as a source of genetic diversity for the crop. A Glycine soja line, PI 468916, contains a resistance QTL to soybean cyst nematode (SCN) Heterodera glycines, a devastating pest of soybean. This resistance QTL has been fine mapped in PI 468916 to a distance of 147kb. Through the use of whole genome sequencing with de novo assembly we were able to gain information about the region. In this thesis the assembly data was used along with fosmid sequences from both Sanger sequencing and Illumina reads to gain insight into sequence differences between the Williams 82 reference genome and PI 468916 to identify the gene(s) responsible for this resistance. The alignment of PI 468916 sequence against the reference genome corresponding to the resistance QTL and the candidate genes present in this region, is presented. This novel resistance locus could be used to introduce new resistance in the crop.

Name thesis:degree_name

M.S.

Level thesis:degree_level

Thesis

Discipline thesis:degree_discipline

Crop Sciences

Grantor

University of Illinois at Urbana-Champaign

Year dc:date

2015

Author dc:creator

• Fliege, Christina

Contributors dc:contributor

• Hudson, Matthew E.

• soybean
• soybean cyst nematode (SCN)

Statement dc:rights

• Copyright 2014 Christina Fliege

Language dc:language

en

Handle dc:identifier

http://hdl.handle.net/2142/72836

OAI identifier oai:identifier

oai:www.ideals.illinois.edu:2142/72836