Constructing genetic linkage maps for Pinus elliottii var. elliottii and Pinus caribaea var. hondurensis using SRAP, SSR, EST and ISSR markers

Genetic linkage map construction and QTL mapping of seedling height, basal diameter and crown width of Taxodium ‘Zhongshanshan 302’ × T. mucronatum

“…Linkage maps facilitate not only gene tagging, map-based cloning (Muchero et al 2015 ; Yang et al 2013a , b ), comparative genomic studies (Moriguchi et al 2012 ), construction of physical maps, the assembly of whole-genomes (Martínez-García et al 2013 ; Marone et al 2012 ), and understanding of genome structure and evolution (Scotti et al 2005 ; Jermstad et al 2011 ), but also molecular marker-assisted selection (MAS) (Moriguchi et al 2012 ; Jena et al 2006 ) and quantitative trait loci (QTLs) mapping (Moriguchi et al 2012 ). In recent decades, genetic maps have been constructed for many conifers, such as Picea abies (Scotti et al 2005 ; Acheré et al 2004 ), Picea mariana (Kang et al 2010 ; Pelgas et al 2005 ), Pinus taeda (Martínez-García et al 2013 ; Eckert et al 2009 ; Temesgen et al 2001 ), Pinus radiata (Moraga-Suazo et al 2014 ), Pinus pinaster (Lepoittevin et al 2012 ; Rittera et al 2002 ), Pinus koraiensis (Chen et al 2010a , b ), Pinus elliottii (Yang et al 2013a ; Shepherd et al 2003 ) and Pinus lambertiana (Jermstad et al 2011 ). Additionally, MAS for QTLs has been reported in nearly all crop species (Moriguchi et al 2012 ; Jena et al 2006 ; Zhong et al 2006 ).…”

“…The PCR-based DNA marker system aims to amplify open reading frames with particular primer pairs (Sun et al 2006 ; Li and Quiros 2001 ; Guo et al 2014 ), and its polymorphisms originate from the variations in promoter, intron and spacer lengths among individuals and species (Sun et al 2006 ; Li and Quiros 2001 ). SRAP markers have many advantages, including reliability, reproducibility, simplicity, high efficiency, moderate throughput ratios and easy isolation of bands (Yang et al 2013a ; Chen et al 2010b ; Li and Quiros 2001 ; Guo et al 2014 ). Furthermore, it can target functional genes and detect any base changes, insertions or deletions in a sequence (Yang et al 2013a ; Chen et al 2010b ).…”

“…SRAP markers have many advantages, including reliability, reproducibility, simplicity, high efficiency, moderate throughput ratios and easy isolation of bands (Yang et al 2013a ; Chen et al 2010b ; Li and Quiros 2001 ; Guo et al 2014 ). Furthermore, it can target functional genes and detect any base changes, insertions or deletions in a sequence (Yang et al 2013a ; Chen et al 2010b ). Therefore, SRAP can be employed in cDNA fingerprinting, genetic map construction, QTL mapping, comparative genetics and genetic diversity assessments (Yang et al 2013a ; Sun et al 2006 ).…”

“…Furthermore, it can target functional genes and detect any base changes, insertions or deletions in a sequence (Yang et al 2013a ; Chen et al 2010b ). Therefore, SRAP can be employed in cDNA fingerprinting, genetic map construction, QTL mapping, comparative genetics and genetic diversity assessments (Yang et al 2013a ; Sun et al 2006 ). Yu et al ( 2009 ) established and optimized the SRAP-PCR reaction system in Taxodium and successfully identified authentic hybrids generated from a cross of T. distichum and T. mucronatum using 12 polymorphic SRAP combinations, concluding that SRAP markers are useful and efficient molecular markers in Taxodium .…”

“…This is also true for constructing genetic linkage maps and determining QTLs based on their characteristics of co-dominance, abundance, wide distribution over the genome, and high level of polymorphisms, transferability and reproducibility (Wang et al 2015 ; Cheng et al 2015 ; Gaudet et al 2008 ; Canli 2004 ; Liu et al 2014 ). Thus, microsatellite markers have been widely applied to the construction of genetic linkage maps in forest trees, such as Eucalyptus grandis (García et al 2011 ), P. cerasus (Canli 2004 ), P. nigra (Gaudet et al 2008 ), P. koraiensis (Chen et al 2010b ), P. abies (Acheré et al 2004 ), P. pinaster (Rittera et al 2002 ), P. elliottii and P. caribaea (Yang et al 2013a ).…”