Identification and genomic location of a reniform nematode (Rotylenchulus reniformis) resistance locus (Renari) introgressed from Gossypium aridum into upland cotton (G. hirsutum)

In this association mapping study, a tri-species hybrid, [Gossypium arboreum × (G. hirsutum × G. aridum)2], was crossed with MD51ne (G. hirsutum) and progeny from the cross were used to identify and map SSR markers associated with reniform nematode (Rotylenchulus reniformis) resistance. Seventy-six progeny (the 50 most resistant and 26 most susceptible) plants were genotyped with 104 markers. Twenty-five markers were associated with a resistance locus that we designated Renari and two markers, BNL3279_132 and BNL2662_090, mapped within 1 cM of Renari. Because the SSR fragments associated with resistance were found in G. aridum and the bridging line G 371, G. aridum is the likely source of this resistance. The resistance is simply inherited, possibly controlled by a single dominant gene. The markers identified in this project are a valuable resource to breeders and geneticists in the quest to produce cotton cultivars with a high level of resistance to reniform nematode

Comparative Developmental Expression Profiling of Two C. elegans Isolates

Gene expression is known to change during development and to vary among genetically diverse strains. Previous studies of temporal patterns of gene expression during C. elegans development were incomplete, and little is known about how these patterns change as a function of genetic background. We used microarrays that comprehensively cover known and predicted worm genes to compare the landscape of genetic variation over developmental time between two isolates of C. elegans. We show that most genes vary in expression during development from egg to young adult, many genes vary in expression between the two isolates, and a subset of these genes exhibit isolate-specific changes during some developmental stages. This subset is strongly enriched for genes with roles in innate immunity. We identify several novel motifs that appear to play a role in regulating gene expression during development, and we propose functional annotations for many previously unannotated genes. These results improve our understanding of gene expression and function during worm development and lay the foundation for linkage studies of the genetic basis of developmental variation in gene expression in this important model organism

Single nucleotide polymorphism analysis using KASP assay reveals genetic variability in Rotylenchulus reniformis

This study employed single nucleotide polymorphisms (SNPs) to determine the genetic variability present in 26 isolates of Rotylenchulus reniformis from Louisiana, Mississippi, Arkansas, South Carolina, Georgia, Hawaii, and Alabama. Genomic DNA from reniform nematode was extracted and increased quantitatively using the process of whole genome amplification. More than 162 putative SNPs were identified, 31 of which were tested using a KASP kompetitive allele-specific PCR genotyping assay. Of the SNPs tested, 13, 17, and 19 SNPs revealed genetic variability within reniform nematode isolates from Louisiana, Mississippi, and Arkansas, respectively. Seven SNPs elucidated genetic differences among isolates of reniform nematode from Louisiana, Mississippi, and Arkansas. Eight SNPs determined genetic variability among individual isolates from South Carolina, Georgia, Hawaii, and Alabama. This study is the first to report genetic variability in geographic isolates of reniform nematode employing a SNP assay. This study also demonstrated that SNP markers can be used to evaluate isolates of R. reniformis and could be useful to assess their genetic diversity, origin, and distribution. Such information would be extremely useful in resistance breeding programs

Reproduction and pathogenicity of endemic populations of Rotylenchulus reniformis on cotton

The reniform nematode (Rotylenchulus reniformis) is the predominant parasitic nematode of upland cotton (Gossypium hirsutum) in the southern United States. Little is known about variability in geographic isolates of reniform nematode. In order to evaluate the comparative reproduction and pathogenicity of reniform nematode populations endemic in Louisiana, a series of microplot and greenhouse experiments were conducted. Reniform nematode populations derived from single-egg masses collected from West Carroll (WC), Rapides (RAP), Morehouse (MOR) , and Tensas (TEN) parishes were used in full-season (150 days) microplot, and 60-day greenhouse experiments, each repeated once. Data from two microplot trials, averaged over 2 yr, showed significant differences among isolates of reniform nematode in both reproduction and pathogenicity on upland cotton cultivars Phytogen 499 WRF, Deltapine 1133 B2RF, and Phytogen 333 WRF. Across all cotton cultivars, the MOR and RAP isolates had the greatest and the least reproduction value of 331.8 and 230.2, respectively. Reduction in plant dry weight, number of bolls, seed cotton weight, and lint weight was the greatest and the least for MOR and RAP isolates, respectively. MOR and RAP isolates lowered plant dry weights of cotton by 55%, and 9%, respectively. Reproduction and pathogenicity of the WC and TEN isolates were intermediate. Data from greenhouse trials showed results similar to that of microplot trials. In greenhouse experiments, reproduction of MOR and RAP isolates across all cotton genotypes was the greatest (reproductive value of 10.7) and the least (reproductive value of 7.9), respectively. Although reproductions of reniform nematode were lower in the germplasm lines than the cultivars, the germplasm lines sustained greater plant weight loss. The variability in reproduction and pathogenicity among endemic populations of reniform nematode in both the microplot and greenhouse experiments adds further support to the hypothesis that virulence phenotypes of R. reniformis exist