Development of a marker assisted selection program for cacao.

ABSTRACT Production of cacao in tropical America has been severely affected by fungal pathogens causing diseases known as witches' broom (WB, caused by Moniliophthora perniciosa), frosty pod (FP, caused by M. roreri) and black pod (BP, caused by Phytophthora spp.). BP is pan-tropical and causes losses in all producing areas. WB is found in South America and parts of the Caribbean, while FP is found in Central America and parts of South America. Together, these diseases were responsible for over 700 million US dollars in losses in 2001 (4). Commercial cacao production in West Africa and South Asia are not yet affected by WB and FP, but cacao grown in these regions is susceptible to both. With the goal of providing new disease resistant cultivars the USDA-ARS and Mars, Inc. have developed a marker assisted selection (MAS) program. Quantitative trait loci have been identified for resistance to WB, FP, and BP. The potential usefulness of these markers in identifying resistant individuals has been confirmed in an experimental F(1) family in Ecuador.

Resistance gene homologues in Theobroma cacao as useful genetic markers.

Resistance gene homologue (RGH) sequences have been developed into useful genetic markers for marker-assisted selection (MAS) of disease resistant Theobroma cacao. A plasmid library of amplified fragments was created from seven different cultivars of cacao. Over 600 cloned recombinant amplicons were evaluated. From these, 74 unique RGHs were identified that could be placed into 11 categories based on sequence analysis. Primers specific to each category were designed. The primers specific for a single RGH category amplified fragments of equal length from the seven different cultivars used to create the library. However, these fragments exhibited single-strand conformational polymorphism (SSCP), which allowed us to map six of the RGH categories in an F(2) population of T. cacao. RGHs 1, 4 and 5 were in the same linkage group, with RGH 4 and 5 separated by less than 4 cM. As SSCP can be efficiently performed on our automated sequencer, we have developed a convenient and rapid high throughput assay for RGH alleles.

Detection of avocado sunblotch viroid variants using fluorescent single-strand conformation polymorphism analysis.

A specific reverse transcription-polymerase chain reaction (RT-PCR) protocol has been developed for routine detection of avocado sunblotch viroid (ASBVd). Modifications in this diagnostic technique were made to enable fluorescent detection and variant identification using automated capillary electrophoresis (CE) and fluorescent single-strand conformation polymorphism (SSCP) analysis. Sixteen sequence variants characterized in a previous study were analyzed using CE-SSCP on two ABI 310 Genetic Analyzers. Significant differences were detected between data obtained from the two ABI 310 Genetic Analyzers indicating that an internal control must be run concurrently with the samples. The 16 variants could be classified into 11 groups based on the SSCP patterns. The statistical analysis of the migration rate data provided support for the visual differences in SSCP patterns. The use of SSCP in the ASBVd assay is easily accomplished and gives an estimate of the number of variants in crude samples extracted from infected avocado plants.

Application of RT-PCR for Indexing Avocado Sunblotch Viroid.

A method for the routine detection of avocado sunblotch viroid (ASBVd) in nucleic acid extracts of infected avocado tissues by reverse transcription-polymerase chain reaction (RT-PCR) was developed using ASBVd-specific primers. Amplified cDNA products were analyzed by electrophoresis on nondenaturing 6% polyacrylamide slab gels. The size of the major RT-PCR product from ASBVd-infected tissue was estimated to be 250 bp. This product was absent from amplified extracts of uninfected tissue. The amplification product from ASBVd was sequenced by the dideoxynucleotide chain termination method, and the sequence was over 97% identical to the published sequence. The RT-PCR assay is sensitive enough to allow viroid detection without requiring large amounts of tissue, highly purified ASBVd, or molecular hybridization.

Identification of cultivars and validation of genetic relationships in Mangifera indica L. using RAPD markers.

Twenty-five accessions of mango were examined for random amplified polymorphic DNA (RAPD) genetic markers with 80 10-mer random primers. Of the 80 primers screened, 33 did not amplify, 19 were monomorphic, and 28 gave reproducible, polymorphic DNA amplification patterns. Eleven primers were selected from the 28 for the study. The number of bands generated was primer- and genotype-dependent, and ranged from 1 to 10. No primer gave unique banding patterns for each of the 25 accessions; however, ten different combinations of 2 primer banding patterns produced unique fingerprints for each accession. A maternal half-sib (MHS) family was included among the 25 accessions to see if genetic relationships could be detected. RAPD data were used to generate simple matching coefficients, which were analyzed phenetically and by means of principal coordinate analysis (PCA). The MHS clustered together in both the phenetic and the PCA while the randomly selected accessions were scattered with no apparent pattern. The uses of RAPD analysis for Mangifera germ plasm classification and clonal identification are discussed.

In vitro shoot proliferation and propagation of guava (Psidium guajava L.) from germinated seedlings.

Guava seeds were germinated on Murashige and Skoog (MS) medium with or without 8.8 µM benzyladenine (BA). BA increased the rate of germination and the number of lateral shoots (3.4 vs 1.2 per seedling). Stem nodes from these lateral shoots were cultured on proliferation media with 4.4 µM BA, and multiple shoots (3.5) were formed within 4 weeks of culture. Increasing the concentration of BA or the addition of naphthaleneacetic acid (NAA) did not affect shoot formation. Shoots produced from explants and lateral shoots from germinated seedlings were rooted in media containing activated charcoal (AC) or 9.8 µM indolebutyric acid (IBA). Shoots rooted with IBA had a higher rooting percentage (100% vs 75%) and a greater number of roots (5.5 vs 3.2) but the shoots were shorter (2.6 vs 3.4 cm) than when rooted in AC, and they required an additional 4 weeks of culture in media with AC to achieve shoot elongation. About 80% of the shoots with roots survived in the glasshouse and produced normal phenotypic plants.

Microwave energy polymerization of poly(methyl methacrylate) denture base resin.

Several physical property tests were conducted to compare microwave energy and conventional hot water bath polymerization techniques. The two methods of polymerization produced similar dimensional accuracy in complete denture bases. No differences were found in transverse strength, Knoop hardness, density, and residual monomer content of resin test strips. Comparable strength was found between microwave-polymerized and autopolymerized repairs of resin test strips. No porosity was observed in complete or removable partial denture bases polymerized by either technique. The Knoop hardness of microwave-polymerized removable partial denture bases was found to be slightly lower near the metal framework.

In vivo measurements of thermal diffusion through restorations of various materials.

Temperature diffusion was monitored through in vivo restorations with and without bases 0.5 and 1 mm thick. Temperature diffusion was highest through amalgam restorations and slowest through unfilled resin restorations. The rate of diffusion through composite resins and silicate cement fell between the extremes. Bases of both zinc phosphate cement and zinc oxide-eugenol cement reduced the rate of temperature change on the floor of the cavity beneath amalgam restorations. The temperature change was generally less under the 1 mm base than the 0.5 mm base. Bases used beneath the nonmetallic restorations did not reduce the magnitude of temperature change on the cavity floor.

Retention of dowels subjected to tensile and torsional forces.

This investigation measured the maximal tensile and torsional forces sustained by four different designs of dowels. 1. Under tensile force, the threaded screw-in dowels were significantly more retentive than the unthreaded dowels. 2. Under torque, both the threaded screw-in and serrated dowels were significantly more retentive than the smooth-sided dowels.

Thermal diffusion through amalgam and cement base: comparison of in vitro and in vivo measurements.

Thermal diffusion was measured in vitro and in vivo through amalgam and amalgam underlaid with bases of zinc phosphate, zinc oxide-eugenol, and calcium hydroxide cements. Although the magnitudes differed, there generally was good agreement between in vitro and in vivo data with respect to the relative rates of thermal diffusivity through amalgam restorations underlaid with bases of each of the three materials. In all tests, both in vitro and in vivo, the zinc oxide-eugenol base proved to be the best thermal insulator. Calcium hydroxide was the next best thermal barrier and was followed by zinc phosphate cement. In vitro tests indicated dentin to be a better thermal insulator than zinc phosphate cement but inferior to the zinc oxide-eugenol and calcium hydroxide base materials used here. Although a method has been presented here for the in vivo assessment of the efficacy of thermal insulating bases and a number of in vivo experiments were conducted, much research remains to be done in this area. Additional investigation is needed to better define the parameters of thermal change beneath various types of restoratives and also to establish more exactly the role of base thickness in providing thermal protection beneath clinical metallic restorations.