Development and evaluation of a high-throughput,low-cost genotyping platform based on oligonucleotide microarrays in rice

Background  

We report the development of a microarray platform for rapid and cost-effective genetic mapping, and its evaluation using rice as a model. In contrast to methods employing whole-genome tiling microarrays for genotyping, our method is based on low-cost spotted microarray production, focusing only on known polymorphic features.     

ARTERIOGRAPHIC ANATOMY OF THE ABDOMINAL AORTA IN THE GOAT, DOG, PIG, AND RABBIT

Arteriographic anatomy of the major branches of the abdominal aorta of rabbits, dogs, pigs, and goats was investigated. The origin and location of the celiac, cranial mesenteric, right renal, left renal, caudal mesenteric, and external iliac arteries were demonstrated, and their placement was described in relation to the iliac bifurcation and lumbar vertebral bodies.     

CONTRAST RADIOGRAPHY OF THE OVINE GASTROINTESTINAL TRACT

Contrast radiography of the alimentary canal was conducted in six adult sheep with barium sulfate (70% W/V, 25–30 ml/kg). A period of 12 hours was adequate for opacification of most parts of the gastrointestinal tract. The presence of contrast medium in different parts of the alimentary canal was noted for as long as 60 hours. The right lateral view was adequate for visualization of most structures, but the typical laminar mucosal pattern of the omasum and the spiral mucosal folds of the abomasum were demonstrated better on the ventrodorsal view.     

Recombinase Polymerase Amplification assay for rapid detection of a geminivirus associated with potato apical leaf curl disease

Journal of Plant Diseases and Protection - Recombinase Polymerase Amplification (RPA) assay was developed for specific detection of Tomato leaf curl New Delhi virus-potato (ToLCNDV [potato]),...     

Analysis of genetic diversity in Piper nigrum L. using RAPD markers

RAPD analysis was conducted in 22 cultivars of P. nigrum(black pepper) from South India and one accession each of P. longum and P. colubrinum. Twenty-four primers generated 372 RAPD markers of which 367 were polymorphic. Jaccard's similarity between pairs of accessions ranged between 0.11 and 0.66 with a mean of 0.38. Among P. nigrum cultivars, the similarity ranged between 0.20 and 0.66 and the mean was 0.42. The existence of wide genetic diversity as revealed in the present study is supported by earlier reports of extensive inter- and intrapopulation morphological variability in pepper cultivars from South India. UPGMA dendrogram and PCO plot revealed P. colubrinum to be most distant of the three species. Genetic proximity among P. nigrum cultivars could be related to their phenotypic similarities or geographical distribution. Greater divergence was observed among landraces than among advanced cultivars. Landraces grown in southern parts of coastal India and those grown in more northern parts were grouped in separate clusters of the dendrogram.     

Development of simplified and rapid nucleic acid release protocol for PCR based detection of <Emphasis Type="Italic">Potato viruses</Emphasis>

A simple, cost-effective and rapid viral nucleic acid release (NAR) buffer suitable for RT-PCR based diagnostic assay was developed for the detection of potato viruses. The NAR buffer and commercially available RNA isolation kit were compared for RT-PCR based assay, where an amplicon of expected size (~380 bp) targeting PVY was observed in both isolations indicating that it can be used in RT-PCR based diagnostic assays. The same was further validated for its repeatability by running across more than hundred suspected potato leaf samples collected from different sources where, it showed consistent results for the presence of PVY indicating its reliability. The NAR buffer assay was examined for its sensitivity in comparison with the kit based isolation where both the assays were able to detect even up to 10^?5 dilution without affecting the sensitivity. NAR buffer was found stable up to 28 days at -20 °C and for 14 days at 4 °C without losing PCR sensitivity. The assay was also found effective to release the nucleic acid from potato leaves, thrips and aphids for PCR and RT-PCR based detection of DNA viruses like ToLCNDV-potato and other RNA viruses. The developed protocol is simple, less laborious, time-saving (10-15 min) and economical (1/100th of kit) as compared to kit based protocol. The assay can be adopted in diagnostic laboratories for detection of RNA/DNA viruses from potato plants and in thrips as well.     

Estimated Quantities and Trends of Cadmium, Lead, and Mercury in US Municipal Solid Waste Based on Analysis of Incinerator Ash

The degradation of diethyl phthalate (DEP) in aqueous solution by titanium dioxide (TiO₂) photocatalysis has been investigated in our research. DEP was completely removed in the solution by 50-min irradiation. Results show that DEP degradation rate was affected by initial DEP concentration, photocatalyst amount, light intensity, and pH. Photocatalytic degradation intermediates were identified by gas chromatography-mass spectrometry intermediates were identified by gas chromatography-mass spectrometry. The major intermediates are methyl benzoate, ethyl benzoate, and carboxylic derivatives. The photocatalytic degradation process was found to obey first-order reaction. Consequently, the result of photocatalytic degradation could be an efficient method of DEP removal from wastewater.     

Ecological and economical sustainability assessment of community forest management in Nepal: A reality check

This study analyzes the sustainability of community forest management, representing four forest types of two physiographic region Hills and Terai of Nepal. We assess the sustainability based on species composition, stand density, growing stock volume, and growth-to-removal ratio using inventory data of 109 permanent forest plots from four consecutive intervals of three to five years. In addition, forest users, forest committee members, and forest officials were consulted. We observed increment on the representation of economically valuable tree species in all forest types of both regions. The pole-size tree dominates in all forest types with declining number of trees and regeneration. In case of Hills forests, they were over-harvested until 2013 but were under-harvested in the recent period. In contrary, forests were under-harvested in the Terai. We found that ecological objectives of sustainable management are fully achieved while economic benefits remained unharnessed where harvesting is far below the growth. We conclude that maintaining a large number of trees may contribute to ecological but not on economical sustainability. We argue to rationalize annual harvest in all categories of the forest to enhance resource conditions together with regular benefits to the local communities.     

Sex inheritance and development of gynoecious hybrids in bitter gourd (Momordica charantia L.)

Gynoecism has been used on a large scale in heterosis breeding of cucumber. Production of hybrid seeds in bitter gourd is highly expensive because it is done mainly through hand pollination. But utilization of a gynoecious line would be more economical and easier method. Since gynoecious parent has only female flowers, the open pollinated seeds it produces will be F₁ hybrid. It will reduce the cost of male flower pinching and hand pollination. Two gynoecious lines, DBGY-201 and DBGY-202 were crossed with two monoecious cultivars, “Pusa Do Mausami” and “Pusa Vishesh” and their F₂ populations were observed to determine the inheritance pattern of gynoecious sex form. Another experiment was conducted to determine magnitude of heterosis by utilizing nine inbred lines including one gynoecious line, DBGY-201 in diallel (without reciprocal) mating system. All the gynoecious hybrids showed significant heterosis in a desirable direction for traits like sex ratio (male:female), days to first picking, number of fruits per plant, yield per plant, and vine length. The segregation pattern in F₂ suggested that gynoecious sex form in bitter gourd was governed by single recessive gene. The gynoecious hybrids DBGY-201 × “Pusa Vishesh” and DBGY-201 × “Pusa Do Mausami” were important for early harvest (～50 days after sowing) whereas DBGY-201 × “Priya” and DBGY-201 × “Arka Harit” were promising for higher yield.     

Encapsulation of Bolbophorus damnificus (Digenea: Bolbophoridae) Metacercariae in Juvenile Channel Catfish,Ictalurus punctatus,Is Linked to Delayed‐onset Mortality

Bolbophorus damnificus (Digenea: Bolbophoridae) causes significant economic losses in catfish aquaculture in the southeastern USA. To determine mortality trends associated with B. damnificus exposure, three separate disease challenges were conducted. The first challenge exposed channel catfish, Ictalurus punctatus, fingerlings (7–13 cm) to approximately 285 B. damnificus cercariae/L, while the second exposed fish to approximately 215 cercaria/L. Fish were monitored for morbidity and mortality for 28 d. In both studies, mortality first occurred 8 d postchallenge (PC) and peaked at 9 and 10 d PC, respectively. Mortality had subsided by 14 d PC, with only sporadic mortality occurring >15 d PC. Dead and moribund fish presented with lesions consistent with B. damnificus infection. A third challenge was performed to record histological changes associated with parasite development from initial exposure up to the cessation of mortality. Catfish (2–5 cm) were exposed as described above to a range covering 0, 35, 70, 100, 150, 175, and 215 cercariae/L. Each day, two fish were sampled from each treatment. Mortality trends were consistent with previous challenges. The mortality window coincided with parasite encapsulation, neovascularization, and development of the host‐derived cyst, suggesting that morbidity and mortality are linked to host pathophysiological changes in response to metacercariae encapsulation.