Fine mapping for double podding gene in chickpea

Publication Overview
TitleFine mapping for double podding gene in chickpea
AuthorsAli L, Deokar A, Caballo C, Tar’an B, Gil J, Chen W, Millan T, Rubio J
TypeJournal Article
Journal NameTheoretical and Applied Genetics
Volume129
Issue1
Year2016
Page(s)77-86
CitationAli L, Deokar A, Caballo C, Tar’an B, Gil J, Chen W, Millan T, Rubio J. Fine mapping for double podding gene in chickpea. 2016; 129(1):77-86.

Abstract

Key message For the first time, fine mapping for sfl locus was carried out using a battery of new STMS and SNP markers. The target region was delimited to 92.6 Kb where seven annotated genes were found that could be candidate genes for the simple/double podding trait in chickpea. Abstract Four recombinant inbred populations (RIP-1, RIP-7, RIP-11, and CPR-01) were used to map the double podding gene (sfl) in chickpea. In RIP-1, the gene was initially mapped on linkage group (LG) 6 between the two sequence-tagged microsatellite site (STMS) markers TA120 and TR1. Eight new STMS markers were added onto LG6 in the target region and sfl locus was finally located between CAGM27819 and CAGM27777 markers within an interval of 2 cM. Seven out of the eight markers were mapped in RIP-7 and its reciprocal RIP-11 confirming the location of the sfl locus to a 4.8 cM interval flanked by TR44 and CAGM27705. Furthermore, using a high-density single nucleotide polymorphism (SNP) map of CPR-01, sfl was mapped to the same genomic region in a 5.1 cM interval between TR44 and the SNP scaffold1646p97220. Five pairs of near isogenic lines (NILs) and eight recombinant inbred lines (RILs) were used to refine this region in the chickpea physical map. Combining data from linkage analysis in four RIPs, marker physical positions and recombination events obtained in both pairs of NILs and selected RILs, sfl could be placed within a genomic window of 92.6 Kb. Seven annotated genes were extracted from this region. The regulator of axillary meristem-predicted gene could be a candidate gene for the simple/double podding gene. This study provides additional set of markers flanking and tightly linked to sfl locus that are useful for marker-assisted selection.
Stocks
This publication contains information about 12 stocks:
Stock NameUniquenameType
RIP-1RIP-1cultivar
RIP-11RIP-11cultivar
RIP-7RIP-7cultivar
CPR-01CPR-01cultivar
CA2156CA2156cultivar
JG62JG62cultivar
ILC3279ILC3279breeding_research_material
ICCV 96029ICCV 96029cultivar
CDC FrontierCDC Frontiercultivar
CPR-01_x_CRP-01_RILCPR-01_x_CRP-01_RILpopulation
RIP-7_x_RIP-11-RILRIP-7_x_RIP-11-RILpopulation
RIP-1_x_RIP-1_RILRIP-1_x_RIP-1_RILpopulation
Properties
Additional details for this publication include:
Property NameValue
URLhttp://link.springer.com/article/10.1007/s00122-015-2610-1