Screening of Urfa pepper landraces for resistance to Meloidogyne incognita

Journal of Plant Diseases and Protection - The root-knot nematodes (Meloidogyne spp.) are significant pathogens that affect the yield and fruit quality in pepper cultivars (Capsicum spp.)....     

The effects of explant and cytokinin type on regeneration of Prunus microcarpa

We investigated in vitro regeneration ability of Prunus microcarpa subsp. tortusa using various explants (root, cotyledon and hypocotyl pieces) and cytokinins [benzyladenine (BA), meta-Topolin (mT) and thidiazuron (TDZ)]. Sectioned cotyledon, root and hypocotyl pieces of in vitro grown seedlings were cultured on Nas and Read Medium (NRM) containing BA (7.5, 10, 12.5, 15 or 17.5 μM), mT (2.5, 5.0, 7.5, 10 or 12.5 μM) or TDZ (2.5, 5.0, 7.5, 10 or 12.5 μM). As a measurement of morphogenetic reaction, the ratios of regenerating explants and the numbers of primary adventitious shoots per regenerating explant were analyzed. Cotyledon explants exhibited higher regeneration ratios than hypocotyl explants, and the root explants were inappropriate for regeneration. Both BA and mT were effective on shoot regeneration but higher regenerating explant ratios were obtained when BA was used. In comparison with BA and mT, the effect of TDZ on enhancing explant regeneration ability was insignificant. Mean number of adventitious shoot per regenerating explant was between 1 and 4, and regenerating explant ratios were between 0% and 77%. The practical appliacations of the results are discussed.     

A Novel Halotolerant Bacterium Isolated from El Golea Lake in Algeria and Antimicrobial Potential of this Strain

A halotolerant, gram positive, motile and rod, was isolated from the E1 Gol6a lake of Ghardaia, Alegria and screened for its antimicrobial potential. The strain showed an inhibitory effect to gram positive and gram negative bacteria against Cladosporium spp. and a slight inhibitory effect against C. albicans using chloroform as the extraction solvent and the nutrient broth as production medium. 16S rRNA sequencing showed that the isolate named LMB3981 is a new taxon in the family of Bacillaceae （with 96% similarity）. The strain is close to Filobacillus milosensis and Bacillus haloalkaliphilum with 95% similarity. The phenotypic study showed differences between LMB3981 and two strains that are near and have confirmed the results of 16S rRNA sequencing by specific metabolic properties of the strain.     

Pyramiding of thermosensitive genetic male sterility (TGMS) genes and identification of a candidate tms5 gene in rice

Three thermosensitive genetic male sterility (TGMS) genes – tms2, tgms and tms5 – were pyramided using linked microsatellite markers. Three TGMS donors, Norin PL 12 (tms2), SA2 (tgms) and DQ200047-21 (tms5) were utilized in generating crosses from which two-gene and three-gene pyramids possessing the RM11 allele of Norin PL 12, RM257 allele of SA2 and RM174 allele of DQ200047-21 were selected. All selected progenies were male-sterile at sterility-inducing conditions. In addition, rice SF21 was identified as a candidate tms5 gene because of its complete linkage with RM174. The 4,200-bp region was amplified from the TGMS line M105S and the two ends were sequenced. In silico analysis of partial nucleotide sequences showed that the region is similar to the SF21 pollen-specific gene of Arabidopsis and Helianthus. The M105S tms5 sequence was also compared to the SF21 sequence from the International Rice Genome Sequencing Project (IRGSP) database.     

Validation of four real‐time TaqMan PCRs for the detection of Ralstonia solanacearum and/or Ralstonia pseudosolanacearum and/or Clavibacter michiganensis subsp. sepedonicus in potato tubers using a statistical regression approach

A new DNA extraction method and a new multiplex real‐time TaqMan PCR test for detection of Ralstonia solanacearum, Ralstonia pseudosolanacearum and Clavibacter michiganensis subsp. sepedonicus in asymptomatic potato tubers are presented. This new multiplex PCR and three published TaqMan PCRs for detection of R. solanacearum and/or R. pseudosolanacearum and/or R. syzygii spp. and/or C. michiganensis subsp. sepedonicus were validated using linear regression analysis for estimating the Ct values and its variation at 5 × 10³ bacteria mL^?1. The three published PCRs that have been validated are Massart et al. (2014, detecting R. solanacearum and C. michiganensis subsp. sepedonicus), Weller et al. (1999, detecting R. solanacearum, R. pseudosolanacearum and R. syzygii spp.) and Gudmestad et al. (2009, detecting C. michiganensis subsp. sepedonicus). All tested PCRs were fit for purpose for their target organisms. The PCR tests have different target genes, allowing one of the sets to be used as first screening test and another as second screening test for the detection of R. solanacearum and/or R. pseudosolanacearum and/or C. michiganensis subsp. sepedonicus in asymptomatic potato tubers.     

Development and use of a two-gene marker-aided selection system for fertility restorer genes in rice

We have established marker-aided selection strategies for the two major Rf genes (Rf3 and Rf4) governing fertility restoration of␣cytoplasmic-genetic male sterility (CMS) in rice. Polymorphisms between restorer and non-restorer␣lines were observed using RG140/PvuII for Rf3 located on chromosome 1 and S10019/BstUI for Rf4 located on chromosome 10. DNA polymorphisms associated with these two loci in restorer lines of wild abortive (WA), Dissi, and Gambiaca cytoplasm are conserved, suggesting that similar biological processes control pollen fertility in this diverse cytoplasm. Because of their close linkage to Rf genes and distinct banding patterns, STS markers RG140/PvuII and S10019/BstUI are well suited for marker-aided selection, enhanced backcross procedures, and pyramiding of Rf genes in agronomically superior non-restorer lines. The combined use of markers associated with these two loci improved the efficiency of screening for putative restorer lines from a set of elite lines. Positional analyses of Rf4 and the inheritance pattern of the polymorphism in S10019/BstUI suggest that Rf4, governing fertility restoration in WA-CMS in rice, is likely to be the same gene governing fertility restoration in BT- and HL-CMS that has a gametophytic effect, which explains why 100% pollen fertility in hybrids is impossible to attain.     

An Application of Landsat-5TM Image Data for Water Quality Mapping in Lake Beysehir, Turkey

The main goal of this study was to investigate spatial patterns in water quality in Lake Beysehir, which is the largest freshwater reservoir in Turkey, by using Landsat-5TM (Thematic Mapper) data and ground surveys. Suspended sediment (SS), turbidity, Secchi disk depth (SDD), and chlorophyll-a (chl-a) data were collected from 40 sampling stations in August, 2006. Spatial patterns in these parameters were estimated using bivariate and multiple regression (MR) techniques based on Landsat-5TM multispectral data and water quality sampling data. Single TM bands, band ratios, and combinations of TM bands were estimated and correlated with the measured water quality parameters. The best regression models showed that the measured and estimated values of water quality parameters were in good agreement (0.60 < R ² < 0.71). TM3 provided a significant relationship (R ²?=?0.67, p?<?0.0001) with SS concentration. MR between chl-a and various combinations of TM bands showed that TM1, TM2, and TM4 are strongly correlated with measured chl-a concentrations (R ²?=?0.60, p?<?0.0001). MR of turbidity showed that TM1, TM2, and TM3 explain 60% (p?<?0.0001) of the variance in turbidity. MR of SDD showed a strong relationship with measured SDD, with R ²?=?0.71 (p?<?0.0001) for the ratio TM1/TM3 and TM1 band combinations. The spatial distribution maps present apparent spatial variations of selected parameters for the study area covering the largest freshwater lake and drinking water reservoir in Turkey. Interpretation of thematic water quality maps indicated similar spatial distributions for SS, turbidity, and SDD. A large area in the middle portion of the lake showed very low chl-a concentrations as it is far from point and nonpoint sources of incoming nutrients. The trophic state index values were calculated from chl-a and SDD measurements. Lake Beysehir was classified as a mesotrophic or eutrophic lake according to chl-a or SDD parameters, respectively.     

Test performance study for detection of Ralstonia solanacearum and Clavibacter sepedonicus in potato tubers with TaqMan PCR

A test performance study (TPS) was organized in 2018 with ten official testing laboratories to evaluate the performance of different real-time PCR tests for the detection of Clavibacter sepedonicus and/or Ralstonia solanacearum in potato tubers. Participants were sent spiked potato extracts with low (0.8–1.2 × 10⁴ cfu mL^-1), medium (1.6–2.4 × 10⁵ cfu mL^-1) and high (1.6–2.4 × 10⁷ cfu mL^-1) bacterial loads, DNA extracts thereof and heel-end cores from symptomatic potato tubers. The four real-time PCR tests in this TPS for detection of C. sepedonicus were considered fit for purpose as principal screening methods. Two real-time PCRs in this TPS were considered fit for purpose as principal screening methods for detection of R. solanacearum. A third real-time PCR missed 23% of the DNA samples from low-level R. solanacearum spikes and is considered not fit for purpose as a principal screening method. Correct identification of spiked samples was lower when DNA extraction from the spiked samples was performed by the participating laboratories, highlighting the importance of appropriate DNA extraction protocols.     

Genetic diversity and phylogenetic relationships of Prunus microcarpa C.A. Mey. subsp. tortusa analyzed by simple sequence repeats (SSRs)

Prunus microcarpa C.A. Mey. subsp. tortusa is a deciduous shrub well adapted to severe winter and dry-hot summer conditions. As the first step to explore the genetic and horticultural potential of P. microcarpa C.A. Mey. subsp. tortusa, we used SSRs to elucidate the genetic variation within its populations dispersed in upper Mesopotamia. We also investigated its phylogenetic relationship with economically important Prunus species; almond, apricot, sweet cherry, peach and plums. Using 47 amplifying SSR primer pairs, 63 P. microcarpa C.A. Mey. subsp. tortusa genotypes sampled from five locations and 15 cultivars belonging to other Prunus species were assayed. The cross-species transportability of SSRs was 96% indicating a high degree of homology between P. microcarpa C.A. Mey. subsp. tortusa and the other Prunus species. The genetic distance between P. microcarpa C.A. Mey. subsp. tortusa genotypes belonging to a particular geographic site was lower than that between genotypes of different geographic origins. Cluster analysis differentiated P. microcarpa C.A. Mey. subsp. tortusa genotypes according to their geographic sites and separated them from the other Prunus species. P. microcarpa C.A. Mey. subsp. tortusa and sweet cherry, the subgenus Cerasus, were located in the same major cluster, the other Prunus species, belonging to the subgenera Amygdalus and Prunus, were located in another one. The analysis of molecular variance (AMOVA) revealed that genetic variation among individuals within populations (59.10%) was much higher than among Prunus groups (29.28%) and among P. microcarpa C.A. Mey. subsp. tortusa populations of different geographic sites (11.61%). The results indicate a substantial genetic diversity in P. microcarpa C.A. Mey. subsp. tortusa and the need of exploring a wider area to increase the chance of finding a particular genotype.