Isolation and functional characterization of Lycopene β-cyclase (CYC-B) promoter from Solanum habrochaites

<p>Abstract</p> <p>Background</p> <p>Carotenoids are a group of C40 isoprenoid molecules that play diverse biological and ecological roles in plants. Tomato is an important vegetable in human diet and provides the vitamin A precursor <it>β</it>-carotene. Genes encoding enzymes involved in carotenoid biosynthetic pathway have been cloned. However, regulation of genes involved in carotenoid biosynthetic pathway and accumulation of specific carotenoid in chromoplasts are not well understood. One of the approaches to understand regulation of carotenoid metabolism is to characterize the promoters of genes encoding proteins involved in carotenoid metabolism. <it>Lycopene β-cyclase </it>is one of the crucial enzymes in carotenoid biosynthesis pathway in plants. Its activity is required for synthesis of both α-and β-carotenes that are further converted into other carotenoids such as lutein, zeaxanthin, etc. This study describes the isolation and characterization of chromoplast-specific <it>Lycopene β-cyclase </it>(<it>CYC-B</it>) promoter from a green fruited <it>S. habrochaites </it>genotype EC520061.</p> <p>Results</p> <p>A 908 bp region upstream to the initiation codon of the <it>Lycopene β-cyclase </it>gene was cloned and identified as full-length promoter. To identify promoter region necessary for regulating developmental expression of the <it>ShCYC-B </it>gene, the full-length promoter and its three different 5' truncated fragments were cloned upstream to the initiation codon of <it>GUS </it>reporter cDNA in binary vectors. These four plant transformation vectors were separately transformed in to <it>Agrobacterium</it>. <it>Agrobacterium</it>-mediated transient and stable expression systems were used to study the <it>GUS </it>expression driven by the full-length promoter and its 5' deletion fragments in tomato. The full-length promoter showed a basal level activity in leaves, and its expression was upregulated > 5-fold in flowers and fruits in transgenic tomato plants. Deletion of -908 to -577 bp 5' to ATG decreases the <it>ShCYC-B </it>promoter strength, while deletion of -908 to -437 bp 5' to ATG led to significant increase in the activity of GUS in the transgenic plants. Promoter deletion analysis led to the identification of a short promoter region (-436 bp to ATG) that exhibited a higher promoter strength but similar developmental expression pattern as compared with the full-length <it>ShCYC-B </it>promoter.</p> <p>Conclusion</p> <p>Functional characterization of the full-length <it>ShCYC-B </it>promoter and its deletion fragments in transient expression system <it>in fruto </it>as well as in stable transgenic tomato revealed that the promoter is developmentally regulated and its expression is upregulated in chromoplast-rich flowers and fruits. Our study identified a short promoter region with functional activity and developmental expression pattern similar to that of the full-length <it>ShCYC-B </it>promoter. This 436 bp promoter region can be used in promoter::reporter fusion molecular genetic screens to identify mutants impaired in <it>CYC-B </it>expression, and thus can be a valuable tool in understanding carotenoid metabolism in tomato. Moreover, this short promoter region of <it>ShCYC-B </it>may be useful in genetic engineering of carotenoid content and other agronomic traits in tomato fruits.</p

Lymphatic filariasis in migrant population in non-endemic states - Need to cover by Mass Drug Administration (MDA)

Background:&nbsp;Lymphatic filariasis (LF) is targeted by WHO for global elimination as a public health problem by year2020. GoI is signatory to WHO resolution and envisaged elimination by instituting annual mass drug administration (MDA) in all endemic districts under NVBDCP by year 2015.With rapid industrialization and urbanization, large number of landless farmer, unskilled/skilled labour migrate either singly or with entire family members to other states (which may be non-endemic for LF) in search of employment. These migrants from endemic states escape MDA beings migrated to non-endemic states. Aims and Objectives:&nbsp;To find out prevalence of LF and MF density among migrant staying in non-endemic states and assess needs to institute MDA in such migrants. Material &amp; Methods:&nbsp;This study was a cross sectional epidemiological study carried out in migrant population staying at/near the construction site covering the population of 1640. However, only 1092 person participated in the study. Result:&nbsp;A total of 1092 people agreed to participate in the study, out of which, 22 were found MF positive and 4 presented with clinical signs of LF. The study found MF prevalence of 2.01% with average MF density of 3.90. Conclusion:&nbsp;Endemicity (2.01%) of MF among migratory population more than national average (0.45%), which is capable of continuing transmission (&gt;1%) in population at risk living in non-endemic states where MDA is not administered.&nbsp

Assessment of pulmonary function in patients with type 2 diabetes mellitus: a case-control study

Background:As other microvascular complications, respiratory involvement is far less studied among patients with type-2 Diabetes Mellitus (DM). Objective: to study the extent of pulmonary function limitation among patients with type-2 DM.  Methods:Hospital based matched case-control study.Results:Total of 90 cases and 90 controls matched for age, sex, height and weight were recruited. Patients with DM had neuropathy [63.3% (57; male=27: Female: 30)], retinopathy [44.4% (40; male=22: Female: 18)], nephropathy [41.1% (37; male=17: Female: 20)] and microalbuminuria [14.4% (13; male=5: Female: 8)]. All cases and 88 controls observed with FEV1:FVC ratio of >70.0%, further assessment for delineation of normal and restrictive pattern patients with high level of predicted values of FEV1 as compare to FVC showed that significantly (P = 0.00) more (Cases: 76.6%; Controls: 42.2%) cases had FEV1 >FVC predicted levels as compare to controls, means among diabetics odds of restrictive pattern of lung abnormality is four times (OR: 4.4; CI: 2.3-8.5) more as compare to non-diabetics. In addition a long duration of DM was significantly (r: 0.39; P = 0.00) positively correlated with lung dysfunction.  Conclusion: Patients with type 2 DM patients as compare to its controls observed with restrictive pattern of lung dysfunction.

QlicRice: a web interface for abiotic stress responsive QTL and loci interaction channels in rice

The QlicRice database is designed to host publicly accessible, abiotic stress responsive quantitative trait loci (QTLs) in rice (Oryza sativa) and their corresponding sequenced gene loci. It provides a platform for the data mining of abiotic stress responsive QTLs, as well as browsing and annotating associated traits, their location on a sequenced genome, mapped expressed sequence tags (ESTs) and tissue and growth stage-specific expressions on the whole genome. Information on QTLs related to abiotic stresses and their corresponding loci from a genomic perspective has not yet been integrated on an accessible, user-friendly platform. QlicRice offers client-responsive architecture to retrieve meaningful biological information-integrated and named 'Qlic Search'-embedded in a query phrase autocomplete feature, coupled with multiple search options that include trait names, genes and QTL IDs. A comprehensive physical and genetic map and vital statistics have been provided in a graphical manner for deciphering the position of QTLs on different chromosomes. A convenient and intuitive user interface have been designed to help users retrieve associations to agronomically important QTLs on abiotic stress response in rice. Database URL: http://nabg.iasri.res.in:8080/qlic-rice/

QlicRice: a web interface for abiotic stress responsive QTL and loci interaction channels in rice

The QlicRice database is designed to host publicly accessible, abiotic stress responsive quantitative trait loci (QTLs) in rice (Oryza sativa) and their corresponding sequenced gene loci. It provides a platform for the data mining of abiotic stress responsive QTLs, as well as browsing and annotating associated traits, their location on a sequenced genome, mapped expressed sequence tags (ESTs) and tissue and growth stage-specific expressions on the whole genome. Information on QTLs related to abiotic stresses and their corresponding loci from a genomic perspective has not yet been integrated on an accessible, user-friendly platform. QlicRice offers client-responsive architecture to retrieve meaningful biological information—integrated and named ‘Qlic Search’—embedded in a query phrase autocomplete feature, coupled with multiple search options that include trait names, genes and QTL IDs. A comprehensive physical and genetic map and vital statistics have been provided in a graphical manner for deciphering the position of QTLs on different chromosomes. A convenient and intuitive user interface have been designed to help users retrieve associations to agronomically important QTLs on abiotic stress response in rice

Gestational Age Specific Postnatal Growth Curves for Singleton Babies in Tertiary Hospital of Western Nepal

Introduction: Measurement of birth weight (BW), crown heel length (CHL), head circumference (HC) and chest circumference used to assess the intrauterine growth of a baby vary with altitude, race, gender, socio economic status, maternal size, and maternal diseases. The study aimed to construct centile charts for BW, CHL and HC for new born at different gestational ages in western Nepal. Methods:  This was a descriptive cross sectional study done over a period of 15 months in a tertiary care hospital of western Nepal. BW, length, HC and CC were measured within 12-24 hours of birth. Gestational age was estimated from first day of last menstrual period, maternal ultrasonology and New Ballard’s scoring system. Microsoft 2007 Excel and SPSS-16 was used for data analysis. Cole’s Lambda Mu Sigma method was used for constructing centile curves. Results: Out of 2000 babies analysed, 1910 samples were used to construct smoothed intrauterine growth curve of BW, CHL, and HC from 33-42 weeks of gestation. 57.35% (1147) were male, mean gestational age was 38.13 ±2.44 weeks, where 21.5% were preterm and 1.7% post term. The means of BW, CHL, HC and CC were 2744.78 gm, 47.80 cm, 33.18 cm, and 30.20 cm with standard deviations of 528.29, 3.124, 1.78, and 2.35 respectively. These data vary as compared to the Kathmandu data, in case of birth weight for 10th and 90th centiles, and at 90th centile in case of length. Conclusions: This necessitates the update in the existing growth charts and develop in different geographical regions of a country

SSR and AFLP based genetic diversity of soybean germplasm differing in photoperiod sensitivity

Forty-four soybean genotypes with different photoperiod response were selected after screening of 1000 soybean accessions under artificial condition and were profiled using 40 SSR and 5 AFLP primer pairs. The average polymorphism information content (PIC) for SSR and AFLP marker systems was 0.507 and 0.120, respectively. Clustering of genotypes was done using UPGMA method for SSR and AFLP and correlation was 0.337 and 0.504, respectively. Mantel's correlation coefficients between Jaccard's similarity coefficient and the cophenetic values were fairly high in both the marker systems (SSR = 0.924; AFLP = 0.958) indicating very good fit for the clustering pattern. UPGMA based cluster analysis classified soybean genotypes into four major groups with fairly moderate bootstrap support. These major clusters corresponded with the photoperiod response and place of origin. The results indicate that the photoperiod insensitive genotypes, 11/2/1939 (EC 325097) and MACS 330 would be better choice for broadening the genetic base of soybean for this trait

Multilateral benefit-sharing from digital sequence information will support both science and biodiversity conservation

Open access to sequence data is a cornerstone of biology and biodiversity research, but has created tension under the United Nations Convention on Biological Diversity (CBD). Policy decisions could compromise research and development, unless a practical multilateral solution is implemented.This workwas funded by the German Federal Ministry of Education and Research (BMBF) WiLDSI 031B0862 (A.H.S., J.O., and J.F.) and Horizon Europe EVA-GLOBAL 871029 (A.H.S.). I.K.M. was supported by the National Center for Biotechnology Information of the National Library of Medicine, National Institutes of Health

Bibliometric study of Masters’ and Ph. D. theses accepted by Indian State Agricultural Universities (SAUs) in 2018

An analysis of 5,703 theses accepted by 54 Indian State Agricultural Universities in 2018 and indexed by Krishikosh, a digital repository of Indian Council of Agricultural Research (ICAR) indicates that male scholars produced more than half of the theses at different levels of education, i.e. M.Sc., M.V. Sc., M.B.A., M. Tech and Ph.D. However, at M. Tech level, female scholars produced more theses than their male counter parts. Highest number of theses was produced by Govind Ballabh Pant University of Agriculture and Technology (Pant Nagar) followed by Punjab Agriculture University (Ludhiana). Agronomy and soil science was the area emphasized by more number of universities. A total of 4218 supervisors supervised 5703 theses. Of these, 80.8% were male supervisors and rest 19.2% were female supervisors. Male and female supervisors produced 1.3 and 1.4 theses per supervisor respectively

Abiotic stress responsive cis-regulatory elements (CREs) in rice (Oryza sativa L.) and other plants

Capability of crop plants to adjust to the adverse environmental conditions in a spatiotemporal fashion is critical for their survival and maintaining agricultural productivity. Genetic engineering efforts for improving tolerance to diverse abiotic stresses in crop plants using well characterised stress-inducible promoter elements have proven to be advantageous. Combinatorial interactions of cis-acting DNA elements in the promoters with trans-acting protein factors are key processes governing spatio-temporal gene expression. It is becoming increasingly evident that targeted modification of molecular genetic network is feasible, for exploiting the potential of specific abiotic stress responsive element and its corresponding master regulatory genes via plant genetic engineering.The importance of inducible promoters in agricultural crop improvement is enormous; hence it is very crucial to characterise inducible promoters from plant genome sequence data bases on a large scale. We will briefly discuss here abiotic stress responsive cis-acting elements and their role in abiotic stress regulated gene expression