Development of a wide population of chromosome single-segment substitution lines in the genetic background of an elite cultivar of rice (Oryza sativaL.)

Abstract

Naturally occurring allelic variations underlying complex traits are useful resources for the functional analysis of plant genes. To facilitate the genetic analysis of complex traits and the use of marker-assisted breeding in rice, we developed a wide population consisting of 217 chromosome single-segment substitution lines (SSSLs) using Oryza sativa L. 'Hua-Jing-Xian74' (HJX74), an elite Indica cultivar, as recipient, and 6 other accessions, including 2 Indica and 4 Japonica, as donors. Each SSSL contains a single substituted chromosome segment derived from 1 of the 6 donors in the genetic background of HJX74. The total size of the substituted segments in the SSSL population was 4695.0 cM, which was 3.1 times that of rice genome. To evaluate the potential application of these SSSLs for quantitative trait loci detection, phenotypic variations of the quantitative traits of days to heading and grain length in the population consisting of 210 SSSLs were observed under natural environmental conditions. The results demonstrated that there was a wide range of phenotypic variation in the traits in the SSSL population. These genetic materials will be powerful tools to dissect complex traits into a set of monogenic loci and to assign phenotypic values to different alleles at the locus of interest.

Construction of a new set of rice chromosome segment substitution lines and identification of grain weight and related traits QTLs

“…Several CSSL sets have been constructed in rice, involving a number of related species of the genus Oryza sativa L. (Doi et al 1997, Shan et al 2009, Tian et al 2006b, and subspecies of Oryza sativa L. (Ebitani et al 2005, Kubo et al 1999, Xi et al 2006, and some CSSL sets have already been exploited for identification of grain-yield QTLs (Gutierrez et al 2010, Ishimaru et al 2005, Kubo et al 2002, Madoka et al 2008, Mei et al 2006. Some examples of major genes identified in this way are spd6 (panicle size and plant height) (Shan et al 2009) and gpa7 (grain number per panicle) (Tian et al 2006a) from Oryza rufipogon Griff., and GIF1 (grain-filling and yield) and PROG1 (growth habit, grain number and grain yield) (Tan et al 2008) from cultivated rice.…”

QTL analysis for hybrid sterility and plant height in interspecific populations derived from a wild rice relative, Oryza longistaminata

“…Moreover, referring to the strategies such as advanced backcross QTL analysis (AB-QTL), chromosome segment substitution lines (CSSLs) and near isogenic lines (NILs), favorable QTL from the wild and unadapted germplasm have been transferred into elite breeding lines (Tanksley et al 1996, Taguchi et al 2006, Xi et al 2006. Li et al (2008) developed forty-four hybrid sterile NILs between O. sativa and O. glaberrima, and identified four genes for stable hybrid sterility and an epistatic QTL.…”

Bin-based model construction and analytical strategies for dissecting complex traits with chromosome segment substitution lines

“…Novel CSSLs have been developed in several plant and animal species for fine mapping, cloning, and functional research on QTLs [11,19,24]. Ideal CSSLs carrying one donor segment can be analyzed efficiently using the t-test method, which is commonly used by researchers.…”

“…Later, these novel mapping populations were further developed through successive introgression backcrosses and marker-assisted selection to produce chromosome substitution lines in Arabidopsis [10], chromosome segment substitution lines (CSSLs) and ILs in rice [11][12][13][14], recombinant chromosome substitution lines in barley [15], and backcross inbreed lines in lettuce [16] and tomato [17]. In animal and human genetic studies, Matin et al [18] were the first to use a chromosome-substitution strain for QTL mapping.…”