Brief Review of literature on Puti Lohas

Rasashastra is a science which deals with the pharmaceuticals of medicines out of mercury, minerals, metals, gem stones and animal products etc. Loha and Dhatu are consider as one and the same. Puti Lohas are those drugs which emits bad smell while they are melting. Many references of Puti Lohas is available in Ayurvedic classics since Vedakala to modern texts. Puti Lohas cannot be degraded since they are having their own identity in mineralogy and clinical practice of Ayurveda

Salinity Tolerance of Forage Range Legumes during Germination and Early Seedling Growth

Salinity is one of the rising problems causing tremendous yield losses in many regions of the world especially in arid and semiarid regions. In India, about 5.95M ha areas were affected by salinity. Five states viz. Haryana, Punjab, Rajasthan, Gujarat and Andhra Pradesh accounts for 48% of the total salt affected soils of the country. Establishment of seedlings at early growth stages of crop plants as one of the most important determinants of high yield is severely affected by soil salinity. Increasing salinity levels significantly decreased germination parameters, shoot and root length, shoot and root fresh and dry weights of some forage sorghum cultivars (Kandil et al., 2012). Therefore, in the present investigation three forage range legumes namely centro, clitoria and siratro were tested for their relative salt tolerance to increasing levels of salinity in those combinations of salts which nearly exist in the natural salt affected soils

CicArMiSatDB: the chickpea microsatellite database

Background Chickpea (Cicer arietinum) is a widely grown legume crop in tropical, sub-tropical and temperate regions. Molecular breeding approaches seem to be essential for enhancing crop productivity in chickpea. Until recently, limited numbers of molecular markers were available in the case of chickpea for use in molecular breeding. However, the recent advances in genomics facilitated the development of large scale markers especially SSRs (simple sequence repeats), the markers of choice in any breeding program. Availability of genome sequence very recently opens new avenues for accelerating molecular breeding approaches for chickpea improvement. Description In order to assist genetic studies and breeding applications, we have developed a user friendly relational database named the Chickpea Microsatellite Database (CicArMiSatDB http://cicarmisatdb.icrisat.org). This database provides detailed information on SSRs along with their features in the genome. SSRs have been classified and made accessible through an easy-to-use web interface. Conclusions This database is expected to help chickpea community in particular and legume community in general, to select SSRs of particular type or from a specific region in the genome to advance both basic genomics research as well as applied aspects of crop improvement

A simple and efficient synthesis of substituted pyrazoles

A novel route for the formation of 3-aryl-1-phenyl-1H-pyrazoles was discovered upon the reaction of 3-aryl-1-phenyl-4,5-dihydro-1H-pyrazole-5- carbonitrile with potassium hydroxide in the presence of a phase transfer catalyst (tetrabutylammonium bromide) in THF as a solvent, and a single crystal X-ray study is reported

Preliminary Results on Irradiance Measurements from Lyra and Swap

International audienceThe first and preliminary results of the photometry of Large Yield Radiometer (LYRA) and Sun Watcher using Active Pixel system detector and Image Processing (SWAP) onboard PROBA2 are presented in this paper. To study the day-to-day variations of LYRA irradiance, we have compared the LYRA irradiance values (observed Sun as a star) measured in Aluminum filter channel (171 Å-500 Å) with spatially resolved full-disk integrated intensity values measured with SWAP (174 Å) and Ca II K 1 Å index values (ground-based observations from NSO/Sac Peak) for the period from 01 April 2010 to 15 Mar 2011. We found that there is a good correlation between these parameters. This indicates that the spatial resolution of SWAP complements the high temporal resolution of LYRA. Hence SWAP can be considered as an additional radiometric channel. Also the K emission index is the integrated intensity (or flux) over a 1 Å band centered on the K line and is proportional to the total emission from the chromosphere; this comparison clearly explains that the LYRA irradiance variations are due to the various magnetic features, which are contributing significantly. In addition to this we have made an attempt to segregate coronal features from full-disk SWAP images. This will help to understand and determine the actual contribution of the individual coronal feature to LYRA irradiance variations

Expression of drought responsive genes in pigeonpea and in silico comparison with soybean cDNA library

Pigeonpea, a drought tolerant, semi-arid pulse crop has been investigated for the expression of differentially expressed genes (DEGs) under drought stress. The cDNA library of soybean leaf tissue retrieved from the Unigene database of the NCBI, were compared for in silico expression using IDEG6 web statistical tool. A list of 52 non-redundant DEGs consisting of 11 up-regulated and 41 down-regulated was obtained. Among these, more photosynthesis and light harvesting proteins were down-regulated in drought stress conditions. Pathways were assigned based on KEGG database, revealing 32 genes involved in 17 metabolic pathways. Homologous sequences of six up-regulated genes namely, ADF3, APB, ASR, DLP, LTP1, and UGE5 were then used for quantitative reverse transcription PCR (qRT-PCR) in pigeonpea. The qRT-PCR result revealed the significant up-regulation of dehydrin-like protein (DLP) (5.02 log2 fold) and down-regulation of acid phosphatase class B family protein (APB) (9.43 log2 fold) and non-specific lipid transfer protein 1-like (LTP1) (18.81 log2 fold) in pigeonpea water-stressed leaf sample compared to well-watered leaf samples. No significant difference was observed in the stressed root compared to the stressed pigeonpea leaf sample except that APB showed an up-regulation of 11.35 log2 fold chang

Prioritization of candidate genes in "QTL-hotspot" region for drought tolerance in chickpea (Cicer arietinum L.)

A combination of two approaches, namely QTL analysis and gene enrichment analysis were used to identify candidate genes in the "QTL-hotspot" region for drought tolerance present on the Ca4 pseudomolecule in chickpea. In the first approach, a high-density bin map was developed using 53,223 single nucleotide polymorphisms (SNPs) identified in the recombinant inbred line (RIL) population of ICC 4958 (drought tolerant) and ICC 1882 (drought sensitive) cross. QTL analysis using recombination bins as markers along with the phenotyping data for 17 drought tolerance related traits obtained over 1-5 seasons and 1-5 locations split the "QTL-hotspot" region into two subregions namely "QTL-hotspot_a" (15 genes) and "QTL-hotspot_b" (11 genes). In the second approach, gene enrichment analysis using significant marker trait associations based on SNPs from the Ca4 pseudomolecule with the above mentioned phenotyping data, and the candidate genes from the refined "QTL-hotspot" region showed enrichment for 23 genes. Twelve genes were found common in both approaches. Functional validation using quantitative real-time PCR (qRT-PCR) indicated four promising candidate genes having functional implications on the effect of "QTL-hotspot" for drought tolerance in chickpea.Sandip M Kale, Deepa Jaganathan, Pradeep Ruperao, Charles Chen, Ramu Punna, Himabindu Kudapa, Mahendar Thudi, Manish Roorkiwal, Mohan AVSK Katta, Dadakhalandar Doddamani, Vanika Garg, P B Kavi Kishor, Pooran M Gaur, Henry T Nguyen, Jacqueline Batley, David Edwards, Tim Sutton and Rajeev K Varshne

Development and evaluation of high-density Axiom® CicerSNP Array for high-resolution genetic mapping and breeding applications in chickpea

To accelerate genomics research and molecular breeding applications in chickpea, a high-throughput SNP genotyping platform ‘Axiom®CicerSNP Array’ has been designed, developed and validated. Screening of whole-genome resequencing data from 429 chickpea lines identified 4.9 million SNPs, from which a subset of 70 463 high-quality nonredundant SNPs was selected using different stringent filter criteria. This was further narrowed down to 61 174 SNPs based on p-convert score ≥0.3, of which 50 590 SNPs could be tiled on array. Among these tiled SNPs, a total of 11 245 SNPs (22.23%) were from the coding regions of 3673 different genes. The developed Axiom®CicerSNP Array was used for genotyping two recombinant inbred line populations, namely ICCRIL03 (ICC 4958 × ICC 1882) and ICCRIL04 (ICC 283 × ICC 8261). Genotyping data reflected high success and polymorphic rate, with 15 140 (29.93%; ICCRIL03) and 20 018 (39.57%; ICCRIL04) polymorphic SNPs. High-density genetic maps comprising 13 679 SNPs spanning 1033.67 cM and 7769 SNPs spanning 1076.35 cM were developed for ICCRIL03 and ICCRIL04 populations, respectively. QTL analysis using multilocation, multiseason phenotyping data on these RILs identified 70 (ICCRIL03) and 120 (ICCRIL04) main-effect QTLs on genetic map. Higher precision and potential of this array is expected to advance chickpea genetics and breeding applications

NGS-QCbox and Raspberry for Parallel, Automated and Rapid Quality Control Analysis of Large-Scale Next Generation Sequencing (Illumina) Data

Rapid popularity and adaptation of next generation sequencing (NGS) approaches have generated huge volumes of data. High throughput platforms like Illumina HiSeq produce terabytes of raw data that requires quick processing. Quality control of the data is an important component prior to the downstream analyses. To address these issues, we have developed a quality control pipeline, NGS-QCbox that scales up to process hundreds or thousands of samples. Raspberry is an in-house tool, developed in C language utilizing HTSlib (v1.2.1) (http://htslib.org), for computing read/base level statistics. It can be used as stand-alone application and can process both compressed and uncompressed FASTQ format files. NGS-QCbox integrates Raspberry with other open-source tools for alignment (Bowtie2), SNP calling (SAMtools) and other utilities (bedtools) towards analyzing raw NGS data at higher efficiency and in high-throughput manner. The pipeline implements batch processing of jobs using Bpipe (https://github.com/ssadedin/bpipe) in parallel and internally, a fine grained task parallelization utilizing OpenMP. It reports read and base statistics along with genome coverage and variants in a user friendly format. The pipeline developed presents a simple menu driven interface and can be used in either quick or complete mode. In addition, the pipeline in quick mode outperforms in speed against other similar existing QC pipeline/tools. The NGS-QCbox pipeline, Raspberry tool and associated scripts are made available at the URL https://github.com/CEG-ICRISAT/NGS-QCbox and https://github.com/ CEG-ICRISAT/Raspberry for rapid quality control analysis of large-scale next generation sequencing (Illumina) data

Mining of gene-based SNPs from publicly available ESTs and their conversion to cost-effective genotyping assay in sorghum [Sorghum bicolor (L.) Moench]

Single Nucleotide Polymorphisms (SNPs) are the commonest type of nucleotide variation distributed throughout the genome and have enormous potential to saturate genetic maps. However, their identification is constrained by the huge investment required for their detection. In this study, we used publicly available EST (Expressed Sequence Tag) sequences to identify SNPs in Sorghum bicolor. A total of 12,421 putative SNPs were identified from 2,921 contiguous transcripts leading to an average SNP interval of one putative SNP for every 275.26 bp. The proportion of transition type mutations (0.598) was larger than transversion types conforming to biological expectations. In order to demonstrate the utility of the SNPs for development of markers with relatively cheap assays, we experimentally validated SNPs using Single Strand Conformation Polymorphism (SSCP) technique in sorghum accessions, which are used as parents for development mapping populations. Genotyping these parents of mapping populations with SSCP markers showed up to 33% polymorphism in the markers suggesting that the SNPs can be used as potential resource for S. bicolor crop improvement programs