Genetic diversity and population structure of Barilius barna (Hamilton, 1822) in the sub-Himalayan Dooars region of West Bengal, India through Mitochondrial Cytochrome Oxidase I Sequence analyses

The genetic diversity and the population structure of Barilius barna (Hamilton, 1822) wild population from the Teesta River were assessed through mtDNA cytochrome oxidase I (COI) sequence analyses. The haplotype and nucleotide diversity analyses revealed low level of genetic diversity in the B. barna wild populations, especially in the lower reaches of Teesta (Bholarhat). The genetic differentiation and gene flow between the two study sites were 0.08434 and 2.71, respectively. Tajima’s D, Fu and Li’s D and Fu and Li’s F analyses were used to assess population differentiation in the two study sites. Haplotype networking and phylogenetic analyses clearly distinguished the two populations from each other, as well as from other populations from other parts of the country. Nature and implications of the genetic and haplotype diversities among the populations are discussed. Phylogenetic analyses also indicated that the Gajoldoba population is genetically closer to north Indian river populations, than that to Bholarhat population

A new approach to nearly compact spaces

Using the covers formed by pre-open sets, we introduce and study the notion of po-compactness in topological spaces. The notion of po-compactness is weaker than that of compactness but stronger than semi-compactness. It is observed that po-compact spaces are the same as nearly compact spaces. However, we find new characterizations to near compactness, when we study it in the sense of po-compactness

Prediction of rock load emphasizing excavation damage of in situ rockscaused by blasting in coal mines

Roof failure in coal mines is strongly related to the frequency of laminations and their movement when the load acts upon them. Detachment of roof bolts from mine roof due to improper estimation of extent of weak zone is one of the major problems in underground coal mines, thus affecting the safety and productivity of workings. The most popular and practiced method for roof support design in Indian coal mines is the Central Mining Research Institute-ISM geomechanical classification system. Irrespective of such an established system of support design, accidents due to roof fall still persist. Here we review various available classification systems for rock load estimation and identify their limitations. The study has been extended taking into consideration the case study of KTK-6 incline of Singareni Collieries Company Limited by proposing a modified rock mass classification system based on seismic wave velocity as a key descriptor. A modified rock mass rating (RMR) system (RMRdyn) with inclusion of seismic velocity as one of the parameters is proposed for the estimation of rock load. Enhancement in rock load by 20% has been found for RMRCMRI-ISM values less than 40 according to the new rock load relation. This resulted in under-supporting of the roof and thus might have caused failures. For cases with RMRCMRI-ISM values more than 60, the earlier equation overestimates rock load by about 25% resulting in over-supporting. Thus, estimation of rock load from the proposed new equation appears to be more rational as it takes into account the actual damage zone

Ploidy Dependent Expression of Apomixis Components in Guinea Grass (\u3cem\u3ePanicum maximum\u3c/em\u3e Jacq.)

Apomixis is an asexual method of reproduction through seeds. The potential of apomixis has been envisaged as “asexual revolution” by virtue of its capacity to fix hybrid vigour, a much desirable feature in breeding of agricultural crops. The genetic mechanism of apomixis regulation is complex and is believed to be largely affected by polyploidy (Nogler 1984). Expression of apomixis essentially contains three components, viz. apomeiosis (formation of unreduced egg cell), parthenogenesis (fertilization independent embryo development) and functional endosperm development (autonomous or psuedogamous). In contrast to previous reports, the evidence has now gathered that these three components can be functionally uncoupled and recombination is possible between these components (Kaushal, et al., 2008). Such recombinations lead to diversity in seed development pathways and also provide a mechanism to modify the ploidy levels. Uncoupling of apomeiosis from parthenogenesis may yield high frequency of triploids and haploids. Utilizing this partitioning principle we have generated a ploidy series following a Hybridization–supplemented Apomixis-components Partitioning Approach (HAPA) in guinea grass, a model crop for polyploidy and apomixis research, (Kaushal et al., 2009). From a single 4x (2n=32) progenitor, a ploidy series has been developed represented by 3x, 4x, 5x, 6x, 7x, 8x, 9x and 11x cytotypes. This ploidy series offers advantage of studying ploidy regulated gene expression. There have been sporadic reports on effect of polyploidy in expression of apomixis per se; however information on effect of polyploidy on individual apomixis components is not available. The guinea grass ploidy series with sequentially added monoploid genome doses has been used in present study to understand the effect of ploidy levels on phenotypic expression of partitioned apomixis components

Floquet prethermalization with lifetime exceeding 90s in a bulk hyperpolarized solid

We report the observation of long-lived Floquet prethermal states in a bulk solid composed of dipolar-coupled $^{13}$C nuclei in diamond at room temperature. For precessing nuclear spins prepared in an initial transverse state, we demonstrate pulsed spin-lock Floquet control that prevents their decay over multiple-minute long periods. We observe Floquet prethermal lifetimes $T_2'\approx$90.9s, extended >60,000-fold over the nuclear free induction decay times. The spins themselves are continuously interrogated for $\sim$10min, corresponding to the application of $\approx$5.8M control pulses. The $^{13}$C nuclei are optically hyperpolarized by lattice Nitrogen Vacancy (NV) centers; the combination of hyperpolarization and continuous spin readout yields significant signal-to-noise in the measurements. This allows probing the Floquet thermalization dynamics with unprecedented clarity. We identify four characteristic regimes of the thermalization process, discerning short-time transient processes leading to the prethermal plateau, and long-time system heating towards infinite temperature. This work points to new opportunities possible via Floquet control in networks of dilute, randomly distributed, low-sensitivity nuclei. In particular, the combination of minutes-long prethermal lifetimes and continuous spin interrogation opens avenues for quantum sensors constructed from hyperpolarized Floquet prethermal nuclei.Comment: 5 pages, 5 figures. SI: 2 pages, 4 figure

LARGE SCALE BIOREMEDIATION OF PETROLEUM HYDROCARBON CONTAMINATED WASTE AT INDIAN OIL REFINERIES: CASE STUDIES

ABSTRACT The petroleum industry effluents, oily sludge and oil spills cause a serious threat to the environment as their constituents are toxic, mutagenic and carcinogenic. Safe disposal of these wastes is serious problem. None of the available conventional disposal methods are environment friendly. Biological methods have been well reviewed and acknowledged for remediation of petroleum hydrocarbon contaminated waste (oily waste). An indigenous microbial consortium was developed by assemble of four species of bacteria, isolated from various oil contaminated sites of India, which could biodegrade different fractions of total petroleum hydrocarbon (TPH) of the oily waste to environment friendly end products. The said consortium was applied on field scale at different oil refineries in India and successfully bioremediated 48,914 tons of different types of oily waste. In 44 field case studies of different batch size of ex situ bioremediation process, the initial TPH content varying from 83.50 to 531.30 gm/kg of oily waste, has been biodegraded to < 10 gm/kg of oily waste in major cases in 2 -12 months. In one refinery due to coastal climate, the bioremediation time was > 20 months. The bioremediated soil was non-toxic and natural vegetation was found to be grown on the same. Bioremediation technology has helped various oil industries for the management of their hazardous oily wastes in environment friendly manner

Prevalence and architecture of de novo mutations in developmental disorders.

The genomes of individuals with severe, undiagnosed developmental disorders are enriched in damaging de novo mutations (DNMs) in developmentally important genes. Here we have sequenced the exomes of 4,293 families containing individuals with developmental disorders, and meta-analysed these data with data from another 3,287 individuals with similar disorders. We show that the most important factors influencing the diagnostic yield of DNMs are the sex of the affected individual, the relatedness of their parents, whether close relatives are affected and the parental ages. We identified 94 genes enriched in damaging DNMs, including 14 that previously lacked compelling evidence of involvement in developmental disorders. We have also characterized the phenotypic diversity among these disorders. We estimate that 42% of our cohort carry pathogenic DNMs in coding sequences; approximately half of these DNMs disrupt gene function and the remainder result in altered protein function. We estimate that developmental disorders caused by DNMs have an average prevalence of 1 in 213 to 1 in 448 births, depending on parental age. Given current global demographics, this equates to almost 400,000 children born per year

Heterozygous Variants in KMT2E Cause a Spectrum of Neurodevelopmental Disorders and Epilepsy.

We delineate a KMT2E-related neurodevelopmental disorder on the basis of 38 individuals in 36 families. This study includes 31 distinct heterozygous variants in KMT2E (28 ascertained from Matchmaker Exchange and three previously reported), and four individuals with chromosome 7q22.2-22.23 microdeletions encompassing KMT2E (one previously reported). Almost all variants occurred de novo, and most were truncating. Most affected individuals with protein-truncating variants presented with mild intellectual disability. One-quarter of individuals met criteria for autism. Additional common features include macrocephaly, hypotonia, functional gastrointestinal abnormalities, and a subtle facial gestalt. Epilepsy was present in about one-fifth of individuals with truncating variants and was responsive to treatment with anti-epileptic medications in almost all. More than 70% of the individuals were male, and expressivity was variable by sex; epilepsy was more common in females and autism more common in males. The four individuals with microdeletions encompassing KMT2E generally presented similarly to those with truncating variants, but the degree of developmental delay was greater. The group of four individuals with missense variants in KMT2E presented with the most severe developmental delays. Epilepsy was present in all individuals with missense variants, often manifesting as treatment-resistant infantile epileptic encephalopathy. Microcephaly was also common in this group. Haploinsufficiency versus gain-of-function or dominant-negative effects specific to these missense variants in KMT2E might explain this divergence in phenotype, but requires independent validation. Disruptive variants in KMT2E are an under-recognized cause of neurodevelopmental abnormalities

Bi-allelic Loss-of-Function CACNA1B Mutations in Progressive Epilepsy-Dyskinesia.

The occurrence of non-epileptic hyperkinetic movements in the context of developmental epileptic encephalopathies is an increasingly recognized phenomenon. Identification of causative mutations provides an important insight into common pathogenic mechanisms that cause both seizures and abnormal motor control. We report bi-allelic loss-of-function CACNA1B variants in six children from three unrelated families whose affected members present with a complex and progressive neurological syndrome. All affected individuals presented with epileptic encephalopathy, severe neurodevelopmental delay (often with regression), and a hyperkinetic movement disorder. Additional neurological features included postnatal microcephaly and hypotonia. Five children died in childhood or adolescence (mean age of death: 9 years), mainly as a result of secondary respiratory complications. CACNA1B encodes the pore-forming subunit of the pre-synaptic neuronal voltage-gated calcium channel Cav2.2/N-type, crucial for SNARE-mediated neurotransmission, particularly in the early postnatal period. Bi-allelic loss-of-function variants in CACNA1B are predicted to cause disruption of Ca2+ influx, leading to impaired synaptic neurotransmission. The resultant effect on neuronal function is likely to be important in the development of involuntary movements and epilepsy. Overall, our findings provide further evidence for the key role of Cav2.2 in normal human neurodevelopment.MAK is funded by an NIHR Research Professorship and receives funding from the Wellcome Trust, Great Ormond Street Children's Hospital Charity, and Rosetrees Trust. E.M. received funding from the Rosetrees Trust (CD-A53) and Great Ormond Street Hospital Children's Charity. K.G. received funding from Temple Street Foundation. A.M. is funded by Great Ormond Street Hospital, the National Institute for Health Research (NIHR), and Biomedical Research Centre. F.L.R. and D.G. are funded by Cambridge Biomedical Research Centre. K.C. and A.S.J. are funded by NIHR Bioresource for Rare Diseases. The DDD Study presents independent research commissioned by the Health Innovation Challenge Fund (grant number HICF-1009-003), a parallel funding partnership between the Wellcome Trust and the Department of Health, and the Wellcome Trust Sanger Institute (grant number WT098051). We acknowledge support from the UK Department of Health via the NIHR comprehensive Biomedical Research Centre award to Guy's and St. Thomas' National Health Service (NHS) Foundation Trust in partnership with King's College London. This research was also supported by the NIHR Great Ormond Street Hospital Biomedical Research Centre. J.H.C. is in receipt of an NIHR Senior Investigator Award. The research team acknowledges the support of the NIHR through the Comprehensive Clinical Research Network. The views expressed are those of the author(s) and not necessarily those of the NHS, the NIHR, Department of Health, or Wellcome Trust. E.R.M. acknowledges support from NIHR Cambridge Biomedical Research Centre, an NIHR Senior Investigator Award, and the University of Cambridge has received salary support in respect of E.R.M. from the NHS in the East of England through the Clinical Academic Reserve. I.E.S. is supported by the National Health and Medical Research Council of Australia (Program Grant and Practitioner Fellowship)