Construction of a high density genetic linkage map to define the locus conferring seedlessness from Mukaku Kishu mandarin.

Publication Overview
TitleConstruction of a high density genetic linkage map to define the locus conferring seedlessness from Mukaku Kishu mandarin.
AuthorsKumar K, Yu Q, Bhatia D, Honsho C, Gmitter FG
TypeJournal Article
Journal NameFrontiers in plant science
Volume14
Year2023
Page(s)1087023
CitationKumar K, Yu Q, Bhatia D, Honsho C, Gmitter FG. Construction of a high density genetic linkage map to define the locus conferring seedlessness from Mukaku Kishu mandarin.. Frontiers in plant science. 2023; 14:1087023.

Abstract

Mukaku Kishu ('MK'), a small sized mandarin, is an important source of seedlessness in citrus breeding. Identification and mapping the gene(s) governing 'MK' seedlessness will expedite seedless cultivar development. In this study, two 'MK'-derived mapping populations- LB8-9 Sugar Belle® ('SB') × 'MK' (N=97) and Daisy ('D') × 'MK' (N=68) were genotyped using an Axiom_Citrus56 Array encompassing 58,433 SNP probe sets, and population specific male and female parent linkage maps were constructed. The parental maps of each population were integrated to produce sub-composite maps, which were further merged to develop a consensus linkage map. All the parental maps (except 'MK_D') had nine major linkage groups, and contained 930 ('SB'), 810 ('MK_SB'), 776 ('D') and 707 ('MK_D') SNPs. The linkage maps displayed 96.9 ('MK_D') to 98.5% ('SB') chromosomal synteny with the reference Clementine genome. The consensus map was comprised of 2588 markers including a phenotypic seedless (Fs)-locus and spanned a genetic distance of 1406.84 cM, with an average marker distance of 0.54 cM, which is substantially lower than the reference Clementine map. For the phenotypic Fs-locus, the distribution of seedy and seedless progenies in both 'SB' × 'MK' (55:42, χ2 = 1.74) and 'D' × 'MK' populations (33:35, χ2 = 0.06) followed a test cross pattern. The Fs-locus mapped on chromosome 5 with SNP marker 'AX-160417325' at 7.4 cM in 'MK_SB' map and between two SNP markers 'AX-160536283' and 'AX-160906995' at a distance of 2.4 and 4.9 cM, respectively in 'MK_D' map. The SNPs 'AX-160417325' and 'AX-160536283' correctly predicted seedlessness of 25-91.9% progenies in this study. Based on the alignment of flanking SNP markers to the Clementine reference genome, the candidate gene for seedlessness hovered in a ~ 6.0 Mb region between 3.97 Mb (AX-160906995) to 10.00 Mb (AX-160536283). This region has 131 genes of which 13 genes (belonging to seven gene families) reportedly express in seed coat or developing embryo. The findings of the study will prove helpful in directing future research for fine mapping this region and eventually underpinning the exact causative gene governing seedlessness in 'MK'.

Features
This publication contains information about 2,588 features:
Feature NameUniquenameType
AX-159934714AX-159934714genetic_marker
AX-159846663AX-159846663genetic_marker
AX-159924706AX-159924706genetic_marker
AX-159846476AX-159846476genetic_marker
AX-159883573AX-159883573genetic_marker
AX-160336556AX-160336556genetic_marker
AX-160540295AX-160540295genetic_marker
AX-159961700AX-159961700genetic_marker
AX-159857490AX-159857490genetic_marker
AX-161006122AX-161006122genetic_marker
AX-160546610AX-160546610genetic_marker
AX-159940717AX-159940717genetic_marker
AX-160730437AX-160730437genetic_marker
AX-160496473AX-160496473genetic_marker
AX-159833012AX-159833012genetic_marker
HAX-159845392HAX-159845392genetic_marker
HAX-159834359HAX-159834359genetic_marker
AX-159872610AX-159872610genetic_marker
AX-160503607AX-160503607genetic_marker
HAX-159855442HAX-159855442genetic_marker
AX-160878376AX-160878376genetic_marker
AX-160069983AX-160069983genetic_marker
AX-160245256AX-160245256genetic_marker
AX-160110540AX-160110540genetic_marker
AX-160666466AX-160666466genetic_marker

Pages

Featuremaps
This publication contains information about 1 maps:
Map Name
mandarin-Mukaku_Kishu_consensus-F1
Stocks
This publication contains information about 5 stocks:
Stock NameUniquenameType
LB8-9 Sugar BelleLB8-9 Sugar Belleaccession
Mukaku KishuMukaku Kishuaccession
DaisyDaisyaccession
SB/MK-F1SB/MK-F1population
D/MK-F1D/MK-F1population
Properties
Additional details for this publication include:
Property NameValue
Publication ModelElectronic-eCollection
ISSN1664-462X
pISSN1664-462X
Publication Date2023
Journal AbbreviationFront Plant Sci
PII1087023
Elocation10.3389/fpls.2023.1087023
DOI10.3389/fpls.2023.1087023
CopyrightCopyright © 2023 Kumar, Yu, Bhatia, Honsho and Gmitter.
LanguageEnglish
Language Abbreng
Publication TypeJournal Article
Journal CountrySwitzerland