A genetic linkage map of an apple rootstock progeny anchored to the Malus genome sequence

Publication Overview
TitleA genetic linkage map of an apple rootstock progeny anchored to the Malus genome sequence
AuthorsFernández-Fernández F, Antanaviciute L, van Dyk MM, Tobutt KR, Evans KM, Rees DJG, Dunwell JM, Sargent DJ
TypeJournal Article
Journal NameTree genetics & genomes
Volume8
Issue5
Year2012
Page(s)991-1002
CitationFernández-Fernández F, Antanaviciute L, van Dyk MM, Tobutt KR, Evans KM, Rees DJG, Dunwell JM, Sargent DJ. A genetic linkage map of an apple rootstock progeny anchored to the Malus genome sequence. Tree genetics & genomes. 2012; 8(5):991-1002.

Abstract

An apple rootstock progeny raised from the cross between the very dwarfing ‘M.27’ and the more vigorous ‘M.116’ (‘M.M.106’ × ‘M.27’) was used for the construction of a linkage map comprising a total of 324 loci: 252 previously mapped SSRs, 71 newly characterised or previously unmapped SSR loci (including 36 amplified by 33 out of the 35 novel markers reported here), and the self-incompatibility locus. The map spanned the 17 linkage groups (LG) expected for apple covering a genetic distance of 1,229.5 cM, an estimated 91% of the Malus genome. Linkage groups were well populated and, although marker density ranged from 2.3 to 6.2 cM/SSR, just 15 gaps of more than 15 cM were observed. Moreover, only 17.5% of markers displayed segregation distortion and, unsurprisingly in a semi-compatible backcross, distortion was particularly pronounced surrounding the self-incompatibility locus (S) at the bottom of LG17. DNA sequences of 273 SSR markers and the S locus, representing a total of 314 loci in this investigation, were used to anchor to the ‘Golden Delicious’ genome sequence. More than 260 of these loci were located on the expected pseudo-chromosome on the ‘Golden Delicious’ genome or on its homeologous pseudo-chromosome. In total, 282.4 Mbp of sequence from 142 genome sequence scaffolds of the Malus genome were anchored to the ‘M.27’ × ‘M.116’ map, providing an interface between the marker data and the underlying genome sequence. This will be exploited for the identification of genes responsible for traits of agronomic importance such as dwarfing and water use efficiency.
Features
This publication contains information about 55 features:
Feature NameUniquenameType
SAmsEB116729SAmsEB116729genetic_marker
SAmsEB124615SAmsEB124615genetic_marker
SAmsEB134278SAmsEB134278genetic_marker
SAmsEB138859SAmsEB138859genetic_marker
SAmsEB144676SAmsEB144676genetic_marker
SAmsEB147667SAmsEB147667genetic_marker
SAmsEB149428SAmsEB149428genetic_marker
SAmsEB149589SAmsEB149589genetic_marker
SAmsGO522086SAmsGO522086genetic_marker
SAmsGO566418SAmsGO566418genetic_marker
NZ03c1NZ03c1genetic_marker
NZmsEB177464NZmsEB177464genetic_marker
CV085249CV085249genetic_marker
Hi07b02Hi07b02genetic_marker
NZmsEB137770NZmsEB137770genetic_marker
CH05f05CH05f05genetic_marker
CH02a08CH02a08genetic_marker
N223g04N223g04genetic_marker
CH01c05CH01c05genetic_marker
SAmsEG631384SAmsEG631384genetic_marker
UDP96-416UDP96-416genetic_marker
CH5g02CH5g02genetic_marker
NZmsDR999337NZmsDR999337genetic_marker
MOAJ761MOAJ761genetic_marker
CN913979CN913979genetic_marker

Pages

Featuremaps
This publication contains information about 1 maps:
Map Name
Apple-M432-2012
Cross References
This publication is also available in the following databases:
DatabaseAccession
AGL: USDA National Agricultural LibraryAGL:4786041