Development and characterization of simple sequence repeats forBipolaris sorokinianaand cross transferability to related species

Abstract

Simple sequence repeats (SSR) markers were developed from a small insert genomic library for Bipolaris sorokiniana, a mitosporic fungal pathogen that causes spot blotch and root rot in switchgrass. About 59% of sequenced clones (n = 384) harbored SSR motifs. After eliminating redundant sequences, 196 SSR loci were identified, of which 84.7% were dinucleotide repeats and 9.7% and 5.6% were tri- and tetra-nucleotide repeats, respectively. Primer pairs were designed for 105 loci and 85 successfully amplified loci. Sixteen polymorphic loci were characterized with 15 B. sorokiniana isolates obtained from infected switchgrass plant materials collected from five states in USA. These loci successfully cross-amplified isolates from at least one related species, including Bipolaris oryzae, Bipolaris spicifera and Bipolaris victoriae, that causes leaf spot on switchgrass. Haploid gene diversity per locus across all isolates studied varied 0.633-0.861. Principal component analysis of SSR data clustered isolates according to their respective species. These SSR markers will be a valuable tool for genetic variability and population studies of B. sorokiniana and related species that are pathogenic on switchgrass and other host plants. In addition, these markers are potential diagnostic tools for species in the genus Bipolaris.

The genusBipolaris

“…2011, 2012, Farr & Rossman 2013 ). Their ability to cause devastating diseases can be influenced by the environmental conditions and the abiotic stresses on plants ( Krupinsky et al. 2004, Fajolu et al.…”

Comparative Analysis of Herbaceous and Woody Cell Wall Digestibility by Pathogenic Fungi

“…Causes disease on the root, leaf and stem, and head tissue. [25,26] Fusarium graminearum Ascomycota Cereals (e.g., wheat) and grasses (e.g., switchgrass)…”

“…Another comparison was made with Colletotrichum gloeosporioides , which infects a broad range of hosts, including woody and herbaceous plants [ 23 ]. Sclerotinia sclerotiorum was used as a representative herbaceous dicot pathogen that infects rapeseed [ 24 ], while Bipolaris sorokiniana [ 25 , 26 ], Gaeumannomyces graminis [ 27 ], Fusarium graminearum [ 28 , 29 , 30 ], and Rhizoctonia cerealis [ 31 , 32 ] were used as herbaceous monocot pathogens that infect wheat. Comparing the hydrolytic activities of the selected pathogens would help determine whether the pathogens have host preferences.…”

Monitoring of Host Suitability and Defense-Related Genes in Wheat to Bipolaris sorokiniana

“…Molecular methods have several advantages over the classical methods used to identify plant pathogens [14,16,55]. Various PCR-based methods have been developed to diagnose spot blotch disease of wheat [17][18][19]. In this study, a qPCR method was developed for detecting the pathogen in wheat tissue at the early stages of the infection process and for evaluating plant genotypes with different levels of resistance.…”

“…Molecular techniques have become a useful approach to study the phylogenetic relationship among plant pathogens and conserved sequences of internal transcribed spacers (ITS), β-tubulin, 28S rRNA gene (LSU), 18S rRNA gene (SSU), RNA polymerase second largest subunit (RPB2), translation elongation factor 1-alpha (EF1-α), and glyceraldehyde-3-phosphate dehydrogenase (GAPDH) provided informative sites for the specific detection of numerous fungal diseases [14][15][16]. Different approaches based on PCR were used for routine detection of spot blotch disease [17][18][19][20]. However, the development of more novel disease recognition and assessment techniques is needed to improve the efficiency of plant disease management practices.…”