TY  - BOOK
AU  - Jupe Florian
AU  - Bryan Glenn J
AU  - Cardle Linda
AU  - Cock Peter J
AU  - Etherington Graham J
AU  - Hein Ingo
AU  - Jones Jonathan D G
AU  - Leggett Richard M
AU  - Maclean Dan
AU  - Pritchard Leighton
AU  - Sliwka Jadwiga
AU  - Werweij Walter
AU  - Witek Kamil
TI  - Resistance gene enrichment sequencing (RenSeq) enables reannotation of the NB-LRR gene family from sequenced plant genomes and rapid mapping of resistance loci in segregating populations
PY  - 2013///
PB  - The Plant Journal
KW  - NB-LRR
KW  - Next-generation sequencing
KW  - pathogen resistance
KW  - Solanaceae
KW  - Solanum berthaultii
KW  - Solanum lycopersicum
KW  - Solanum tuberosum Group Phureja clone DM-3 516 R44
KW  - Solanumm ruiz-ceballosii
KW  - Target enrichment
KW  - Technical advance
N2  - RenSeq is a NB_LRR (nucleotide binding-site leucine-rich repeat) gene-targeted, Resistance gene enrichment and sequencing method that enables discovery and annotation of pathogen resistance gene family members in plant genome sequences. We successfully applied RenSeq to the sequenced potato Solanum tuberosum clone DM, and increased the number of identified NB-LRRs from 438 to 755. The majority of these identified R gene loci reside in poorly or previously unannoted regions of the genome. Sequnece and positional details on the 12 chromosomes have been established for 704 NB-LRRs and can be accessed through a genome browser that we provide.We compared these NB-LRR genes and the corresponding oligonucleotide baits with the highest sequence similarity and demonstrated that ~80;sequence identity is sufficient for enrichment. Analysis of sequenced tomato S. lycopersicum Heinz 1706 extended the NB-LRR complement to 394 loci. We further describe a methodology that applies RenSeq to rapidly identify molecular markers that co-segregate with a pathogen resistance trait of interest. In two independent segregating populations involving the wild Solanum species S. berthaultii (Rpi-ber2) and S.ruiz-ceballosii (Rpi-rzc1), we were able to apply RenSeq successfully to identify markers that co-segregate with resistance towards the late blight pathogen Phytophthora infestans. These SNP identification workflows were designed as easy-to-adapt Galaxy pipelines
ER  -