Evaluation of Rice Cultivars for Resistance to \u3ci\u3eCnaphalocrocis medinalis\u3c/i\u3e Guenée (Lepidoptera: Pyralidae)

Greenhouse screening of 17,914 accessions of rice, Oryza sativa L., from 62 countries identified 115 accessions from 10 countries having resistant or moderately resistant reactions to Cnaphalocrocis medinalis Guenée. Of 264 wild rices (Oryza spp.) screened, 10 (3.7%) were resistant. Several breeding lines having “Ptb33” and “W1263” as donor parents were moderately resistant. All of the resistant accessions are from regions where C. medinalis is an important pest, except for one accession from Italy, which is beyond the range of C. medinalis distribution

Down-regulation of DNMT3b in PC3 cells effects locus-specific DNA methylation, and represses cellular growth and migration

<p>Abstract</p> <p>Background</p> <p>Aberrations in DNA methylation patterns promote changes in gene expression patterns and are invariably associated with neoplasia. DNA methylation is carried out and maintained by several DNA methyltransferases (DNMTs) among which DNMT1 functions as a maintenance methylase while DNMT3a and 3b serve as de novo enzymes. Although DNMT3b has been shown to preferentially target the methylation of DNA sequences residing in pericentric heterochromatin whether it is involved in gene specific methylation remains an open question. To address this issue, we have silenced the expression of DNMT3b in the prostate-derived PC3 cells through RNA interference and subsequently studied the accompanied cellular changes as well as the expression profiles of selected genes.</p> <p>Results</p> <p>Our results demonstrate that DNMT3b depletion results in increased apoptosis and reduced migration of PC3 cells compared to the untransfected control cells. Reduced DNMT3b expression resulted in hypomethylation of retinoblastoma (Rb), retinoic-acid receptor β (RAR-β), and adenomatous polyposis coli (APC) gene promoters, and also culminated in increased expression of <it>CDKN3 </it>and <it>cytochrome b5</it>. Although DNMT3b silenced cells were found to have reduced growth and migratory potential, there was no apparent changes in their invasive ability compared to the parental PC3 cell line.</p> <p>Conclusion</p> <p>Our findings reveal that DNMT3b preferentially targets certain gene promoters in PC3 cells and that its depletion significantly reduces growth and migration of PC3 cells.</p

Silencing of MBD1 and MeCP2 in prostate-cancer-derived PC3 cells produces differential gene expression profiles and cellular phenotypes

Alterations in genomic CpG methylation patterns have been found to be associated with cell transformation and neoplasia. Although it is recognized that methylation of CpG residues negatively regulates gene expression, how the various MBPs (methyl-binding proteins) contribute to this process remains elusive. To determine whether the two well characterized proteins MeCP2 (methyl-CpG-binding protein 2) and MBD1 (methyl-CpG-binding domain 1) have distinct or redundant functions, we employed RNAi (RNA interference) to silence their expression in the prostate cancer-derived PC3cell line, and subsequently compared cell growth, invasion and migration properties of these cell lines in addition to their respective mRNA-expressionprofiles. Cells devoid of MeCP2 proliferated more poorly compared with MBD1-deficient cells and the parental PC3 cells. Enhanced apoptosis was observed in MeCP2-deficient cells, whereas apoptosis in parental and MBD1-deficient cells appeared to be equivalent. Boyden chamber invasion and wound-healing migration assays showed that MBD1-silenced cells were both more invasive and migratory compared with MeCP2-silenced cells. Finally, gene chip microarray analyses showed striking differences in the mRNA-expression profiles obtained from MeCP2- and MBD1-depleted cellsrelative to each other as well as when compared with control cells. The results of the present study suggest that MeCP2 and MBD1 silencing appear to affect cellular processes independently in vivo and that discrete sets of genes involved in cellular proliferation, apoptosis, invasion and migration are targeted by each protein

Small pelagic fishes in the Philippines

This paper is a synthesis of all available data and information on small pelagic species selected for the third regional workshop on shared stocks in the South China Sea area. However, omission of some small pelagic species recognized in the recently APFIC meeting resulted to a minimal variations in some of the statistical figures

Pronounced Genetic Structure in a Highly Mobile Coral Reef Fish, Caesio cuning, in the Coral Triangle

The redbelly yellowtail fusilier Caesio cuning has a tropical Indo-West Pacific range that straddles the Coral Triangle, a region of dynamic geological history and the highest marine biodiversity on the planet. Previous genetic studies in the Coral Triangle indicate the presence of multiple limits to connectivity. However, these studies have focused almost exclusively on benthic, reef-dwelling species. Schooling, reef-associated fusiliers (Perciformes: Caesionidae) account for a sizable portion of the annual reef catch in the Coral Triangle, yet to date, there have been no indepth studies on the population structure of fusiliers or other mid-water, reef-associated planktivores across this region. We evaluated the genetic population structure of C. cuning using a 382 bp segment of the mitochondrial control region amplified from over 620 fish sampled from 33 localities across the Philippines and Indonesia. Phylogeographic analysis showed that individuals sampled from sites in western Sumatra belong to a distinct Indian Ocean lineage, resulting in pronounced regional structure between western Sumatra and the rest of the Coral Triangle (φCT = 0.4796, p \u3c 0.004). We found additional significant population structure between central Southeast Asia and eastern Indonesia (φCT = 0.0450, p \u3c 0.001). These data in conjunction with spatial analyses indicate that there are 2 major lineages of C. cuning and at least 3 distinct management units across the region. The location of genetic breaks as well as the distribution of divergent haplotypes across our sampling range suggests that current oceanographic patterns could be contributing to observed patterns of structure

Pronounced Genetic Structure in a Highly Mobile Coral Reef Fish, Caesio Cuning, in the Coral Triangle

The redbelly yellowtail fusilier, Caesio cuning, has a tropical Indo-West Pacific range that straddles the Coral Triangle, a region of dynamic geological history and the highest marine biodiversity on the planet. Previous genetic studies in the Coral Triangle indicate the presence of regional limits to connectivity across this region. However, these have focused almost exclusively on benthic reef dwelling species. Schooling, reef-associated fusiliers (Perciformes: Caesionidae) account for a sizable portion of the annual reef catch in the Coral Triangle, yet to date, there have been no in depth studies on the population structure of fusiliers or other mid-water, reef-associated planktivores across this region. We evaluated the genetic population structure of C. cuning using a 382bp segment of the mitochondrial control region amplified from over 620 fish sampled from 33 localities across the Philippines and Indonesia. Phylogeographic analysis showed that individuals sampled from sites in western Sumatra belong to a distinct Indian-Ocean lineage, resulting in pronounced regional structure between western Sumatra and the rest of the Coral Triangle (ΦCT = 0.4796, p \u3c 0.0043). We measured additional significant population structure between central Southeast Asia and eastern Indonesia (ΦCT = 0.0450, 36 p \u3c 0.0002). These data in conjunction with spatial analyses indicate that there are two major lineages of C. cuning and at least three distinct management units across the region. The location of genetic breaks as well as the distribution of divergent haplotypes across our sampling range suggests that current oceanographic patterns could be contributing to observed patterns of structure

Multi-center real-world comparison of the fully automated Idylla (TM) microsatellite instability assay with routine molecular methods and immunohistochemistry on formalin-fixed paraffin-embedded tissue of colorectal cancer

Microsatellite instability (MSI) is present in 15-20% of primary colorectal cancers. MSI status is assessed to detect Lynch syndrome, guide adjuvant chemotherapy, determine prognosis, and use as a companion test for checkpoint blockade inhibitors. Traditionally, MSI status is determined by immunohistochemistry or molecular methods. The Idylla (TM) MSI Assay is a fully automated molecular method (including automated result interpretation), using seven novel MSI biomarkers (ACVR2A, BTBD7, DIDO1, MRE11, RYR3, SEC31A, SULF2) and not requiring matched normal tissue. In this real-world global study, 44 clinical centers performed Idylla (TM) testing on a total of 1301 archived colorectal cancer formalin-fixed, paraffin-embedded (FFPE) tissue sections and compared Idylla (TM) results against available results from routine diagnostic testing in those sites. MSI mutations detected with the Idylla (TM) MSI Assay were equally distributed over the seven biomarkers, and 84.48% of the MSI-high samples had >= 5 mutated biomarkers, while 98.25% of the microsatellite-stable samples had zero mutated biomarkers. The concordance level between the Idylla (TM) MSI Assay and immunohistochemistry was 96.39% (988/1025); 17/37 discordant samples were found to be concordant when a third method was used. Compared with routine molecular methods, the concordance level was 98.01% (789/805); third-method analysis found concordance for 8/16 discordant samples. The failure rate of the Idylla (TM) MSI Assay (0.23%; 3/1301) was lower than that of referenced immunohistochemistry (4.37%; 47/1075) or molecular assays (0.86%; 7/812). In conclusion, lower failure rates and high concordance levels were found between the Idylla (TM) MSI Assay and routine tests.Peer reviewe

Evaluation of Rice Cultivars for Resistance to \u3ci\u3eCnaphalocrocis medinalis\u3c/i\u3e Guenée (Lepidoptera: Pyralidae)

Greenhouse screening of 17,914 accessions of rice, Oryza sativa L., from 62 countries identified 115 accessions from 10 countries having resistant or moderately resistant reactions to Cnaphalocrocis medinalis Guenée. Of 264 wild rices (Oryza spp.) screened, 10 (3.7%) were resistant. Several breeding lines having “Ptb33” and “W1263” as donor parents were moderately resistant. All of the resistant accessions are from regions where C. medinalis is an important pest, except for one accession from Italy, which is beyond the range of C. medinalis distribution

Susceptibility and tolerance in hybrid and pure-line rice varieties to herbivore attack: biomass partitioning and resource-based compensation in response to damage

© 2016 Association of Applied Biologists Hybrid rice has been noted for its susceptibility to insects and diseases compared to pure-line (conventional) rice varieties. We investigated herbivory by Nilaparvata lugens, Sogatella furcifera and Scirpophaga incertulas on replicated three-line hybrid sets (parental and hybrid lines) in field and greenhouse experiments. In a field experiment, caterpillar densities and stemborer damage was similar among hybrid and parental lines. In field and greenhouse experiments, the cytoplasmic male sterile (CMS)-lines and maintainer lines had higher densities of planthoppers (including N. lugens and S. furcifera) than restorer or hybrid lines likely because of their wild abortive CMS-lineage. High nitrogen levels increased plant mortality due to N. lugens, but often reduced mortality from S. furcifera and S. incertulas: this was similar between hybrid and pure-line varieties. The hybrids were generally more tolerant of herbivory (lower biomass reductions per unit weight of insect) than the inbred parental lines. The addition of nitrogen to both the hybrid and pure-line varieties had contrasting effects on tolerance depending on the nature of the attacking insect: fertiliser increased tolerance to S. furcifera (lower losses of yield and shoot biomass per mg insect) and S. incertulas (lower yield, shoot and root biomass loss) but fertiliser reduced tolerance to N. lugens (higher loss of root biomass and no effects on yield and shoot biomass loss). Our results indicate that hybrid rice is not physiologically more susceptible to herbivores than are pure-line varieties even under high nitrogen conditions, but does have higher tolerance to insect damage