Viral burden and diversity in acute respiratory tract infections in hospitalized children in wet and dry zones of Sri Lanka

The present study was done to identify the viral diversity, seasonality and burden associated with childhood acute respiratory tract infection (ARTI) in Sri Lanka. Nasopharyngeal aspirates (NPA) of hospitalized children (1 month—5 years) with ARTI were collected in 2 centers (wet and dry zones) from March 2013 to August 2014. Respiratory viral antigen detection by immunofluorescence assay (IFA) was used to identify the infecting viruses. IFA negative 100 NPA samples were tested for human metapeumovirus (hMPV), human bocavirus and corona viruses by polymerase chain reaction. Of the 443 and 418 NPAs, 37.2% and 39.4% were positive for any of the 8 different respiratory viruses tested from two centers studied. Viral co-infection was detected with respiratory syncytial virus (RSV) in both centers. Peak viral detection was noted in the wet zone from May-July 2013 and 2014 and in the dry zone from December-January 2014 suggesting a local seasonality for viral ARTI. RSV showed a clear seasonality with a direct correlation of monthly RSV infections with rainy days in the wet zone and an inverse correlation with temperature in both centers. The case fatality rate was 2.7% for RSV associated ARTI. The overall disability adjusted life years was 335.9 and for RSV associated ARTI it was 241.8. RSV was the commonly detected respiratory virus with an annual seasonality and distribution in rainy seasons in the dry and wet zones of Sri Lanka. Identifying the virus and seasonality will contribute to employ preventive measures and reduce the empirical use of antibiotics in resource limited settings.

Hydrotropic Root Behavior in Water-saving Cultivation: a High-resolution Monitoring Study of Soil Water Dynamics

PurposeSubsurface irrigation has been confirmed to have high water use efficiency (WUE) due to it irrigating only the crop root zone. This study investigated hydrotropic root behavior when a wet zone was produced around the roots by subsurface irrigation to clarify the dynamics of soil water content in the wet zone caused by water absorption of the growing plant. ResultsWe conducted a feasibility study of a high-resolution soil moisture sensing prototype and gathered data to analyze hydrotropism and plant water absorption activity. We applied signal processing, high pass filtering, and Fast Fourier Transform (FFT) to the acquired high-resolution soil moisture data. The results showed distinct fluctuation of moisture at the boundary area, which indicated plant’s biological rhythm of photosynthetic activities. We also quantified root distribution inside and outside the wet zone and observed the shape of the root system from the cross-section of the wet zone. The results show that hydrotropism restricted most of the roots to the inside of the wet zone. Furthermore, root hydrotropic response is nonuniform for all roots of an individual plant. ConclusionsThe results suggest a new method to study hydrotropic root behavior and plant photosynthetic activities. We assumed a mechanical, push-and-pull model of water dynamics at the wetting front and the root mass accumulated by hydrotropism is an important system parameter. To further evaluate a plant’s hydrotropic performance, it is necessary to use stochastic analysis and/or a non-deterministic approach.

Prior Assessment of Variability in the Geotechnical Properties of Soils for Efficient Infrastructure Management

Advance assessments of variations in geotechnical properties of soils are invaluable in making a crucial judgment of geotechnical engineering projects. It could drive to reduce the number of field and laboratory tests so that efficient management design and construction of infrastructure project outputs can be achieved. In this study, we aim at assessing the geotechnical properties of residual, alluvial, marshy, coastal, and compacted soils within the wet and the dry zones of Sri Lanka. Plastic limit (PL), liquid limit (LL), shrinkage limit (SL), plasticity index (PI), liquidity index (LI), compression index (Cc), swell potential (SP), activity, natural moisture content (NMC) and SPT-N values were either extracted from reports or deduced from formulas and graphs. Wet zone marshy soils (My_W) show highest statistical means for PL (~23%), LL (~40%), PI (~16 %), SL (~20 %), LI (~ 1%), Cc (~ 0.200) and NMC (~ 35%), indicating poor engineering properties. Wet zone residual soils (Re_W) represent a wide range of direct correlations to the parent material. CH, OH, CL and SM soil groups for some My_W show high expansive, while, CL, Pt/CL, OL, SC, SM in My_W, CL, and SC in Re_W and CL in Dry Zone Alluvial Soils (Al_D) display medium expansive. The higher SPT-N values were recorded in the upper 6.00m and between 12.00-16.00m for the shell of earth dams (SED_D) in the dry zone, in contrast to Al_D soils representing higher N values for 6.00-12.00m. Except for marshy soils, no vertical variation for plasticity was observed in others. Since high to medium swell potential in the unsaturated zone is encountered within the upper 1.50m, attention should pay to the My_W. LL and PI of My_W were strongly correlated (R2 = 0.83) so that an equation PI% = -1.91 + (0.46*LL%) could be used to calculate PI. The results provide baseline geotechnical property variations for the five soils in Sri Lanka so that during planning, best-calculated assessment could be achieved which could minimize time and cost for crucial geotechnical investigations.

Molecular phylogeny and phylogeography of the freshwater-fish genus Pethia (Teleostei: Cyprinidae) in Sri Lanka

Background Sri Lanka is a continental island separated from India by the Palk Strait, a shallow-shelf sea, which was emergent during periods of lowered sea level. Its biodiversity is concentrated in its perhumid south-western ‘wet zone’. The island’s freshwater fishes are dominated by the Cyprinidae, characterized by small diversifications of species derived from dispersals from India. These include five diminutive, endemic species of Pethia (P. bandula, P. cumingii, P. melanomaculata, P. nigrofasciata, P. reval), whose evolutionary history remains poorly understood. Here, based on comprehensive geographic sampling, we explore the phylogeny, phylogeography and morphological diversity of the genus in Sri Lanka. Results The phylogenetic analyses, based on mitochondrial and nuclear loci, recover Sri Lankan Pethia as polyphyletic. The reciprocal monophyly of P. bandula and P. nigrofasciata, and P. cumingii and P. reval, is not supported. Pethia nigrofasciata, P. cumingii, and P. reval show strong phylogeographic structure in the wet zone, compared with P. melanomaculata, which ranges across the dry and intermediate zones. Translocated populations of P. nigrofasciata and P. reval in the Central Hills likely originate from multiple sources. Morphological analyses reveal populations of P. nigrofasciata proximal to P. bandula, a narrow-range endemic, to have a mix of characters between the two species. Similarly, populations of P. cumingii in the Kalu basin possess orange fins, a state between the red-finned P. reval from Kelani to Deduru and yellow-finned P. cumingii from Bentara to Gin basins. Conclusions Polyphyly in Sri Lankan Pethia suggests two or three colonizations from mainland India. Strong phylogeographic structure in P. nigrofasciata, P. cumingii and P. reval, compared with P. melanomaculata, supports a model wherein the topographically complex wet zone harbors greater genetic diversity than the topographically uniform dry-zone. Mixed morphological characters between P. bandula and P. nigrofasciata, and P. cumingii and P. reval, and their unresolved phylogenies, may suggest recent speciation scenarios with incomplete lineage sorting, or hybridization.

Two new species of Lagenandra (Araceae) from the Wet Zone of Sri Lanka

Taxonomic revisions are the most reliable pathway in unfolding new species to the world. During such a revision of the genus Lagenandra in Sri Lankan, we came across two new species: Lagenandra kalugalensis and Lagenandra srilankensis from the Wet Zone of Sri Lanka. The two new species were studied in detail and compared with the morphology of the other species described in the genus, and based on field collected data conservation assessments were performed. A detailed description for the two new species and an updated taxonomic key to the Sri Lankan Lagenandra is presented here for easy identification. Recognizing two new endemic members enhances the number of Sri Lankan species of Lagenandra to eleven and global to nineteen. According to the IUCN red data category guidelines, L. kalugalensis qualifies for Critically Endangered category under Criterion B1ab (ii,iii,v) + B2ab (ii,iii,v) while L. srilankensis qualifies for Critically Endangered category under B1ab (iii, iv) + C2 (a) (i, ii). Hence, immediate conservation measures are imperative.