Variability in Symbiotic Effectiveness of Native Rhizobia in Acid Stress

Two strains of gram-negative bacteria isolated because of their abilities to decompose xenobiotic compounds were subjected to a polyphasic taxonomic study. On the basis of 16S rRNA gene sequence analysis, the two strains were found to belong to the genus Pseudomonas. Benzene degrading strain DSM 8628^T was moderately related to P. flavescens NCPP 3063^T (98.3% similarity), P. monteilii CIP 104883^T, and P. plecoglossicida FPC 951^T (98.1%). Strain DSM 9751^T capable to grow with cetyltrimethylammonium chloride as the sole carbon source showed the highest similarity values with P. tremae CFBP 2341^T and P. meliae MAFF 301463^T (98.0%), both related to Pseudomonas syringae. The fatty acid pattern of strain DSM 8628^T was distinct from patterns of other members of the genus Pseudomonas in combining a high ratio of 3OH-C_12:1 (5.1%), a low ratio of 2OH-C_12:0 (0.2%) and a relatively low ratio of C_18:1ω7c (23.8%). On the basis of phylogenetic analysis, physiological properties and the composition of whole cell fatty acids, two novel species, Pseudomonas benzenivorans sp. nov. with the type strain DSM 8628^T (=CIP 109857^T) and Pseudomonas saponiphila sp. nov. with the type strain DSM 9751^T (=CIP 109856^T), are proposed.     

Distribution of arbuscular mycorrhizal fungi in marshy and shoreline vegetation of Deepar Beel Ramsar Site of Assam,India

Arbuscular mycorrhizal fungal (AMF) symbiosis was thought to be rare in wetland plant roots, although several recent studies suggested that this association might be important in wetland ecosystems. In this research work we have studied the distribution of AMF in the marshy and shoreline vegetation of Deepar Beel Ramsar site of Assam, India. The study reveals the percentage of mycorrhizal colonization in the roots of different plant species which were observed from 20.89 to 86.47% and particularly found larger among the members of the family Poaceae. The Vetiveria zizanioides L. from the family Cyperaceae showed the highest (86.47%) percentage of root colonization, however, only one plant species viz. Scirpus lateriflorus Gmel. from the same family was found to be nonmycorrhizal. The rhizospheric soil samples of most of the plant species were found to be dominated by Glomus morphotypes. All total 18 AMF morphotypes were recorded which comprises four genera viz. Glomus (66.67%), Acaulospora (16.66%), Gigaspora (11.11%) and Scutellospora (5.56%). The observation of diversity of AMF in 25 different plant species among the wetland plants gives a glimpse of AMF diversity and their host selectivity in the said ecosystem.     

Composition of the enterococcal intestinal flora of chickens in a tropical area

Enterococcus faecalis was the most frequently occurring enterococcal species in caeca and cloacal swabs of chickens in Assam, India. In chickens less than 8 weeks of age Ent. faecium, Ent. durans and Ent. avium were also found, but infrequently. Enterococcus hirae , which is potentially pathogenic in chickens of less than 1 week of age, was found only in chickens of more than 8 weeks. Except for a higher frequency of Ent. faecalis , the composition of this flora was essentially the same as that in European temperate climates.     

A database for Plasmodium falciparum protein models

There is an urgent need for developing alternate strategies to combat Malaria caused by Plasmodium falciparum (P. falciparum) because of growing drug resistance and increased incidents of infection in humans. 3D models of P. falciparum annotated proteins using molecular modeling techniques will enhance our understanding about the mechanism of host parasite interactions for the identification of drug targets and malarial vaccine design. Potential structural templates for P. falciparum annotated proteins were selected from PDB (protein databank) using BLASTP (basic local alignment search tool for proteins). This exercise identified 476 Plasmodium proteins with one or more known structural templates (>or= 40 % identity) for further modeling. The pair-wise sequence alignments generated for protein modeling were manually checked for error. The models were then constructed using MODELLER (a comparative protein modelling program for modelling protein structures) followed by energy minimization in AMBER force field and checked for error using PROCHECK. AVAILABILITY: http://bioinfo.icgeb.res.in/codes/model.html.     

Role of Glutathione S Transferase Polymorphism in COPD with Special Reference to Peoples Living in the Vicinity of the Open Cast Coal Mine of Assam

Background

COPD may develop due to variation in the functioning of antioxidants along with smoking and environmental factors in genetically susceptible individuals. Since there are different views about the antioxidants responsible for detoxifying xenobiotic compound in the human body whose functional variation may lead to obstructive disease, this associative study has been taken up between GST gene polymorphism and COPD in populations exposed to coal dusts.

Methods

Genotypes of the 70 COPD patients and 85 non COPD patients were determined by PCR based methods followed by multiplex PCR of GSTT1 and GSTM1 genes taking albumin gene as a control. Suspended particulate analyses were determined through the Respirable Dust sampler along with the FTIR analysis of the dust samples from the glass microfiber filters.

Results

Dust sampling analysis reveals higher level of respirable suspended particulate matter, non respirable particulate matter, SO₂ and NO₂ present in air of the study site. FTIR analysis also suggests a higher concentration of organic silicone and aliphatic C-F compounds present in air of the study site and when spirometry was done, low lung function was observed among most of the subjects. GSTM1 null type was significantly associated with low lung function in smoker groups and the presence of at least one active allele (either GSTM1/GSTT1) seemed to have a protective role in the development of COPD.

Conclusions

GSTM1 (null genotype) appeared to be a risk factor for lower lung function in smokers living in the vicinity of coal mines. Apart from polluted environment and genetic susceptibility, mixed coal dust exposure rich in organic silicone and aliphatic C-F compounds also appears to be a factor for the low lung function.     

Proteomic analysis reveals geographic variation in venom composition of Russell’s Viper in the Indian subcontinent: implications for clinical manifestations post-envenomation and antivenom treatment

ABSTRACT

Introduction: The Russell’s Viper (RV) (Daboia russelii), a category I medically important snake, is responsible for a significant level of morbidity and mortality in the Indian sub-continent.

Areas covered: The current review highlights the variation in RV venom (RVV) composition from different geographical locales on the Indian sub-continent, as revealed by biochemical and proteomic analyses. A comparison of these RVV proteomes revealed significant differences in the number of toxin isoforms and relative toxin abundances, highlighting the impact of geographic location on RVV composition. Antivenom efficacy studies have shown differential neutralization of toxicity and enzymatic activity of different RVV samples from the Indian sub-continent by commercial polyvalent antivenom (PAV). The proteome analysis has provided deeper insights into the variation of RVV composition leading to differences in antivenom efficacy and severity of clinical manifestations post RV-envenomation across the Indian sub-continent.

Expert commentary: Variation in RVV antigenicity due to geographical differences and poor recognition of low molecular mass (<20 kDa) RVV toxins by PAV are serious concerns for effective antivenom treatment against RV envenomation. Improvements in immunization protocols that take into account the poorly immunogenic components and geographic variation in RVV composition, can lead to better hospital management of RV bite patients.     

Embryonic development of the threatened freshwater pipefish Microphis deocata (Hamilton, 1822)

The present study provides the first comprehensive embryonic development of the freshwater Syngnathid fish species, Microphis deocata (Hamilton), a Near Threatened pipefish endemic to the Brahmaputra River drainage in Northeast India and Bangladesh. Microphis deocata is a Gastrophori species as the males develop an abdominal brood pouch. Mature individuals were collected and maintained in well-aerated aquaria under controlled conditions to induce natural spawning. The number of eggs within the males' brood pouch ranged from 17 to 22 (for n = 10), measuring 0.7–1.0 mm in diameter. A total of 10 developmental stages could be recognized under four developmental periods namely, early embryogenesis, eye development, snout formation and juvenile. However, sensitivity, and therefore mortality, while handling of this species restricted the study from reporting the exact time intervals for stages following the blastodisc formation ~48 hr post fertilization. A newborn larvae measures ~14 mm and is free-swimming with distinct dorsal fin (with 31–32 rays) and a sector-shaped caudal fin (with 8–9 rays). The study aims to provide baseline information on the embryology of M. deocata in culture condition which will be helpful for future studies on conservation biology, population status and management of this species.     

Synthesis and structural characterization of dinuclear complexes of trivalent aluminum, gallium, indium and chromium derived from pyrazole-2-ethanol

The reaction of 1-(2-hydroxyethyl)-3,5-dimethylpyrazole (HL) with anhydrous metal(III) halides (M = Al, Ga, In and Cr) results in the isolation of four novel dinuclear complexes [Al(μ-L)Cl₂]₂ (1), [Ga(μ-L)Cl₂]₂ (2), [In(μ-L)Br₂(H₂O)]₂·2thf (3) and [Cr(μ-L)Cl₂(H₂O)]₂·1.5thf (4) in good yields. The new complexes have been characterized with the aid of analytical and spectroscopic studies. A single crystal X-ray structure determination in each case confirms the dimeric structure for all the complexes in the solid-state. The pyrazole ethanol ligand binds to the metal through both pyrazole nitrogen and bridging alkoxide oxygen terminals with the formation of a central M₂O₂ core involving the ethoxide anion. The metal(III) center is pentacoordinated in compounds 1 and 2, while it is hexacoordinated in compounds 3 and 4.