ISSR markers based on GA and AG repeats reveal genetic relationship among rice varieties tolerant to drought, flood, or salinity

Abstract

Drought, flood, salinity, or a combination of these limits rice production. Several rice varieties are well known for their tolerance to specific abiotic stresses. We determined genetic relationship among 12 rice varieties including 9 tolerant to drought, flood, or salinity using inter-simple sequence repeat (ISSR) markers. Based on all markers, the nine tolerant varieties formed one cluster distinct from the cluster of three control varieties. The salt-tolerant varieties were closest to two flood-tolerant varieties, and together they were distinct from the drought-tolerant varieties. (GA)(8)YG was the most informative primer, showing the highest polymorphic information content (PIC) and resolving power (Rp). The drought-, flood-, and salt-tolerant varieties grouped in three distinct clusters within the group of tolerant varieties, when (GA)(8)YG was used. Sabita was the only exception. The two aus varieties, Nagina22 and FR13A, were separated and grouped with the drought- and flood-tolerant varieties, respectively, but they were together in dendrograms based on other primers. The results show that ISSR markers associated with (GA)(8)YG delineated the three groups of stress-tolerant varieties from each other and can be used to identify genes/new alleles associated with the three abiotic stresses in rice germplasm.

Assessing genetic diversity in 23 early Polish oat cultivars based on molecular and morphological studies

“…In the literature, this factor took on different values depending on the primers used and diversity of test collections egg. 23.707 for AFLP in sweet sorghum (Pecina-Quintero et al 2012); 73.0 for AFLP in tea (Kafkas et al 2009); 9.79 for ISSR in barley (Fernández et al 2002); 7.67 for ISSR in rice (Reddy et al 2009). The whole above information indicated that, out of the molecular markers used in the study, ISSRs were the most useful.…”

Phylogenetic relationships between Leymus and related diploid Triticeae species revealed by ISSR markers

“…Inter-simple sequence repeats (ISSR) has unique advantages over other molecular markers: it doesn't need any genomic information of the target species, which is extremely important in a preliminary investigation; it consumes small amount of template DNA and can be rapidly conducted, which is an efficient and rapid way in detecting genetic diversity of species (Semagn et al 2006). Previous studies have demonstrated that ISSR markers are appropriate for analyses on genetic diversity and phylogenetic relationship in Graminaceous crops, wheat (Vaillancourt et al 2008), rice (Reddy et al 2009) and maize (Domenyuk et al 2002). AFLP, RAPD and RAMP markers were previously used to assess genetic diversity and interspecific relationships among Leymus species (Yang et al 2006;Yang et al 2008;Culumber et al 2011;Yang et al 2011).…”

Assessment of genetic diversity by simple sequence repeat markers among forty elite varieties in the germplasm for malting barley breeding

“…However, these methods are always associated with various limitations and are insufficient to reveal the whole information within barley resources (Matus and Hayes, 2002). Many types of molecular markers, including restriction fragment length polymorphism (RFLP), random amplified polymorphic DNA (RAPD), amplified fragment length polymorphism (AFLP), simple sequence repeat (SSR), and inter-simple sequence repeat (ISSR), have been used to characterize crop resources (Liu et al, 1996;Russell et al, 1997;Pejic et al, 1998;Shi et al, 2004;Reddy et al, 2009). SSR markers, an excellent molecular marker system with the advantages of being codominant, abundant, highly reproducible, highly polymorphic, and easy to assay, have been used in many types of genetic analyses such as the construction of linkage maps, diversity assessment of germplasm, and identification of molecular markers for marker-assisted selection (Matus and Hayes, 2002;Marcel et al, 2007;Pushpendra et al, 2007).…”