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https://www.readbyqxmd.com/read/28330331/identification-and-quantification-of-novel-rna-isoforms-in-horn-cancer-of-bos-indicus-by-comprehensive-rna-seq
#1
Subhash J Jakhesara, Prakash G Koringa, Neelam M Nathani, Chaitanya G Joshi
Horn cancer (HC) is a squamous cell carcinoma of horn, commonly observed in Bos indicus of the Asian countries. To elucidate the complexity of alternative splicing present in the HC, high-throughput sequencing and analysis of HC and matching horn normal (HN) tissue were carried out. A total of 535,067 and 849,077 reads were analysed after stringent quality filtering for HN and HC, respectively. Cufflinks pipeline for transcriptome analysis revealed 4786 novel splice isoforms comprising 2432 exclusively in HC, 2055 exclusively in HN and 298 in both the conditions...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330305/studies-on-coexistence-of-mec-gene-is256-and-novel-sasx-gene-among-human-clinical-coagulase-negative-staphylococci
#2
K R Soumya, Sheela Sugathan, Jyothis Mathew, E K Radhakrishnan
Methicillin-resistant coagulase-negative staphylococci (MRCoNS) are major nosocomial pathogens which cause device-related infections. Presence of various virulence factors along with methicillin resistance favor improved CoNS pathogenicity and their dissemination among population. In the present study, mec gene prevalence was analyzed along with SCC mec diversity among 55 human clinical CoNS isolates. PCR screening of insertion sequence (IS256) was also conducted to elucidate their association with methicillin resistance among selected CoNS species...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330283/multiplex-pcr-for-simultaneous-identification-of-e-coli-o157-h7-salmonella-spp-and-l-monocytogenes-in-food
#3
Thuy Trang Nguyen, Vo Van Giau, Tuong Kha Vo
The rapid detection of pathogens in food is becoming increasingly critical for ensuring the safety of consumers, since the majority of food-borne illnesses and deaths are caused by pathogenic bacteria. Hence, rapid, sensitive, inexpensive and convenient approaches to detect food-borne pathogenic bacteria is essential in controlling food safety. In this study, a multiplex PCR assay for the rapid and simultaneous detection of Escherichia coli O157:H7, Salmonella spp. and Listeria monocytogenes was established...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330281/evaluation-of-bioactive-secondary-metabolites-from-endophytic-fungus-pestalotiopsis-neglecta-bab-5510-isolated-from-leaves-of-cupressus-torulosa-d-don
#4
Deeksha Sharma, Avijit Pramanik, Pavan Kumar Agrawal
Six endophytic fungi were isolated from Cupressus torulosa D.Don and identified phenotypically and genotypically. The fungal cultures were further grown and the culture was extracted by two organic solvents methanol and ethyl acetate. The screening was carried out using the agar well diffusion method against human pathogen such as Escherichia coli, Salmonella typhimurium, Bacillus subtilis and Staphylococcus aureus. Isolated strain of Pestalotiopsis sp. was showing prominent antibacterial activity. The crude methanol and ethyl acetate extract of Pestalotiopsis sp...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330269/identification-of-the-traditional-and-non-traditional-sulfate-reducing-bacteria-associated-with-corroded-ship-hull
#5
Kiana Alasvand Zarasvand, V Ravishankar Rai
Pitting corrosion due to microbial activity is the most severe type of corrosion that occurs in ship hull. Since biogenic sulfide produced by sulfate-reducing bacteria (SRB) is involved in the acceleration of pitting corrosion of marine vessels, so it is important to collect information about SRB community involved in maritime vessel failure. We investigated the SRB community on corroded hull portion of the ship. With the use of common cultural method and 16S rDNA sequencing, ten bacteria with sulfate reduction ability were isolated and identified...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330259/identification-of-endophytic-bacillus-mojavensis-with-highly-specialized-broad-spectrum-antibacterial-activity
#6
B Jasim, S Sreelakshmi, Jyothis Mathew, E K Radhakrishnan
Biosynthetic adaptation of endophytic bacteria to chemically support host plant is very remarkable. Hence these organisms from medicinal plants are considered as highly valuable sources for natural products with diverse bioactivity. Their metabolite diversity and biosynthetic versatility have been increasingly explored for drug discovery. In this study, an endophytic Bacillus mojavensis with broad spectrum antibacterial properties has been analyzed for the chemical basis of its activity. By LC-MS/MS the organism was identified to have the biosynthetic ability to produce lipopeptides surfactin and fengycin...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330251/stenotrophomonas-sp-rzs-7-a-novel-phb-degrader-isolated-from-plastic-contaminated-soil-in-shahada-maharashtra-western-india
#7
S J Wani, S S Shaikh, B Tabassum, R Thakur, A Gulati, R Z Sayyed
This paper reports an isolation and identification of novel poly-β-hydroxybutyrate (PHB) degrading bacterium Stenotrophomonas sp. RZS 7 and studies on its extracellular PHB degrading depolymerase enzyme. The bacterium isolated from soil samples of plastic contaminated sites of municipal area in Shahada, Maharashtra, Western India. It was identified as Stenotrophomonas sp. RZS 7 based on polyphasic approach. The bacterium grew well in minimal salt medium (MSM) and produced a zone (4.2 mm) of PHB hydrolysis on MSM containing PHB as the only source of nutrient...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330250/deciphering-the-evolutionary-affiliations-among-bacterial-strains-pseudomonas-and-frankia-sp-inhabiting-same-ecological-niche-using-virtual-rflp-and-simulation-based-approaches
#8
Meenakshi Srivastava, Manish Singh Kaushik, Amrita Srivastava, Anumeha Singh, Ekta Verma, Arun Kumar Mishra
To decipher an evolutionary lineage between two different but important bacterial groups, i.e., Pseudomonas strain (γ-Proteobacteria) and Frankia strain (actinobacteria) growing in the same ecological niche in and around of an actinorhizal plant Hippophae salicifolia D. Don, genetic diversity and comparative molecular phylogeny have been investigated using 16S rRNA gene sequences and computer-simulated and virtually directed restriction fragment length polymorphism (RFLP) through 10 restriction enzymes. Bayesian and coalescent analyses on the basis of 16S rRNA gene sequences suggested three major groups with close proximity between Pseudomonas and Frankia isolates...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330205/dna-record-of-some-traditional-small-millet-landraces-in-india-and-nepal
#9
Subramanyam Ragupathy, Shanmughanandhan Dhivya, Kirit Patel, Abiran Sritharan, Kathirvelu Sambandan, Hom Gartaula, Ramalingam Sathishkumar, Kamal Khadka, Balasubramanian C Nirmala, A Nirmala Kumari, Steven G Newmaster
Despite the extensive use of small millet landraces as an important source of nutrition for people living in semi-arid regions, they are presently marginalized and their diversity and distribution are threatened at a global scale. Local farmers have developed ancient breeding programs entrenched in traditional knowledge (TK) that has sustained rural cultures for thousands of years. The convention on biological diversity seeks fair and equitable sharing of genetic resources arising from local knowledge and requires signatory nations to provide appropriate policy and legal framework to farmers' rights over plant genetic resources and associated TK...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330199/optimization-of-fermentation-media-and-growth-conditions-for-microbial-xylanase-production
#10
Bushra Kalim, Nazish Mazhar Ali
Efficiency of cellulase-free xylanases is one of the determining factors in paper and pulp industries. Use of microbes which can produce cellulase-free xylanases may help to overcome the current challenges in kraft pulp processing. Isolation and screening of microorganisms from local samples offers a possibility for obtaining the potential microbes for this purpose. This research was therefore aimed to collect, screen, characterize and identify potential cellulase-free xylanase producers. A total of 313 microbial isolates were collected while using selective media (EBAM and XAM) to determine the xylanolytic potential of microbes...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330195/identification-and-characterization-of-endophytic-bacteria-isolated-from-in-vitro-cultures-of-peach-and-pear-rootstocks
#11
Fakhra Liaqat, Rengin Eltem
Endophytes are microorganisms which live symbiotically with almost all varieties of plant and in turn helping the plant in a number of ways. Instead of satisfactory surface sterilization approaches, repeatedly occurring bacterial growth on in vitro rootstock cultures of peach and pear was identified and isolated as endophytic bacteria in our present study. Five different isolates from peach rootstocks were molecularly identified by 16S rRNA gene sequencing as Brevundimonas diminuta, Leifsonia shinshuensis, Sphingomonas parapaucimobilis Brevundimonas vesicularis, Agrobacterium tumefaciens while two endophytic isolates of pear were identified as Pseudoxanthomonas mexicana, and Stenotrophomonas rhizophilia...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330192/differential-display-reverse-transcription-pcr-ddrt-pcr-a-new-technology-for-molecular-detection-and-studying-one-of-the-antagonistic-factors-of-bacillus-endophyticus-strain-sa-against-staphylococcus-aureus-mrsa
#12
Mahmoud F Moustafa, Tarek H Taha, M Helal, Sulaiman A Alrumman
Differential Display (DDRT-PCR) is a powerful technique for analyzing differences in gene expression. In-vivo expression technologies and differential display RT-PCR are providing new approaches to further examine a microbe's response to experimental conditions which more closely resemble natural microbial associations and habitats. In this study, Bacillus endophyticus strain SA isolated from the inner tissue of the stem of the cultivated plant (Salvadora persica, Asir, Kingdom of Saudi Arabia) produces an antagonistic factor...
December 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330178/emergence-of-mixed-infection-of-beijing-non-beijing-strains-among-multi-drug-resistant-mycobacterium-tuberculosis-in-pakistan
#13
Samar Mustafa, Hasnain Javed, Jawairia Hashmi, Nazia Jamil, Zarfishan Tahir, Abdul Majeed Akhtar
Tuberculosis (TB) remains as one of the deadliest diseases after HIV globally with 95 % of deaths confined to low-and-middle income countries. Pakistan is fifth among the 22 high-burden TB countries with the incidence rate of 230/100,000 persons, however, studies related to prevalent Mycobacterium tuberculosis strains and their spread, drug resistance pattern and evolutionary genetics are inadequate. The present study was undertaken to highlight the circulation of M. tuberculosis strains causing drug resistant TB in our community by targeting the molecular marker IS6110 and then characterization of these strains as Beijing and Non-Beijing genotypes...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330150/phylogenetic-relationships-of-fluorescent-pseudomonads-deduced-from-the-sequence-analysis-of-16s-rrna-pseudomonas-specific-and-rpod-genes
#14
Asmita Rajwar, Manvika Sahgal
Phylogenetic relationship of 22 FLPs was revealed on the basis of polymorphism in three genes namely 16S rDNA, Pseudomonas-specific and rpoD gene regions. The primers for 16S rDNA, Pseudomonas-specific region and rpoD gene region were amplifying a region of 1492, 990 and 760 bp, respectively, from all the isolates investigated. The RFLP analysis of the PCR products resulted in a classification of these fluorescent pseudomonads which was best answered by rpoD-based RFLP analysis. The 22 FLPs were placed in two major clusters and seven subclusters suggesting that these were genotypically heterogenous and might belong to several species within Pseudomonas sensu stricto...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330126/characterization-of-lignin-degrading-enzymes-ldes-from-a-dimorphic-novel-fungus-and-identification-of-products-of-enzymatic-breakdown-of-lignin
#15
Lipin Dev Mundur Sahadevan, Chandra Shekhar Misra, V Thankamani
Lignin is a major component of all plants, the degradation of which remains a major challenge to date owing to its recalcitrant nature. Several classes of fungi have been studied to carry out this process to some extent, but overall the process remains inefficient. We have isolated a novel alkalophilic dimorphic lignin-degrading Deuteromycete from soil, identified as "uncultured" and coded as MVI.2011. Supernatant from 12-h culture of MVI.2011 in optimized mineral medium containing lignin pH 9.0 was analysed for Lignin Peroxidase, Manganese Peroxidase and Laccase...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330123/microbial-degradation-of-low-density-polyethylene-ldpe-by-aspergillus-clavatus-strain-jask1-isolated-from-landfill-soil
#16
Anudurga Gajendiran, Sharmila Krishnamoorthy, Jayanthi Abraham
Polythene and plastic waste are found to accumulate in the environment, posing a major ecological threat. They are found to be considered non-degradable, once it enters the environment it has been found to remain there indefinitely. However, significant attention has been placed on biodegradable polymer, identification of microbes with degradative potential on plastic material. The aim of the present investigation was to biodegrade low-density polyethylene (LDPE) using potential fungi isolated from landfill soil...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330120/assessment-of-genetic-purity-in-rice-oryza-sativa-l-hybrids-using-microsatellite-markers
#17
Anjana Bora, Partha Ray Choudhury, Veena Pande, Asit B Mandal
The objective of the present study is to detect genetic impurity in the seed lots of CMS lines, restorers and hybrids and to identify signature markers to differentiate parents and hybrids through DNA-based assays. Furthermore, attempts have been made to find out an alternative to Grow-Out-Test, which is very tedious, time consuming and used conventionally for seed genetic purity testing since beginning of quality seed multiplication chain. Fifty-one rice-specific sequence tagged microsatellite (STMS) primer pairs distributed throughout the rice genome were employed for fingerprinting of eight rice hybrids and their parental lines with a view to assess variation within parental lines and to test the genetic purity of the commercial seed lots...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330110/sequence-based-approach-for-rapid-identification-of-cross-clade-cd8-t-cell-vaccine-candidates-from-all-high-risk-hpv-strains
#18
Krishna P Singh, Neeraj Verma, Bashir A Akhoon, Vishal Bhatt, Shishir K Gupta, Shailendra K Gupta, Suchi Smita
Human papilloma virus (HPV) is the primary etiological agent responsible for cervical cancer in women. Although in total 16 high-risk HPV strains have been identified so far. Currently available commercial vaccines are designed by targeting mainly HPV16 and HPV18 viral strains as these are the most common strains associated with cervical cancer. Because of the high level of antigenic specificity of HPV capsid antigens, the currently available vaccines are not suitable to provide cross-protection from all other high-risk HPV strains...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330109/biomass-production-and-identification-of-suitable-harvesting-technique-for-chlorella-sp-mj-11-11-and-synechocystis-pcc-6803
#19
Amrit Lal, Debabrata Das
Microalgae that can grow fast and convert solar energy into chemical energy efficiently are being considered as a promising feedstock of renewable biofuel. Mass production of microalgal oil faces a number of technical barriers that make the current production of biodiesel economically unfeasible. Small size (≈1-20 μm) and negatively charged surface of the microalgal cells pose difficulties in the process of harvesting. This leads to significant increase in the overall cost of biomass production. The present study explored different methods and conditions for harvesting of Chlorella sp...
June 2016: 3 Biotech
https://www.readbyqxmd.com/read/28330108/identification-of-novel-snps-in-differentially-expressed-genes-and-its-association-with-horn-cancer-of-bos-indicus-bullocks-by-next-generation-sequencing
#20
P G Koringa, S J Jakhesara, D N Rank, C G Joshi
The use of polymorphic markers like SNPs promises to provide comprehensive tool for analysing genome and identifying genomic regions that contribute to cancer phenotype. Horn cancer is the most common cancer among Bos indicus animals. Increased expression of some genes due to polymorphisms increases risk of HC incidence. We successfully amplified 91 SNPs located in 69 genes in 52 samples, each of HC and HN. Equimolar concentration of amplicons from 69 PCR products of each sample was pooled and subjected to sequencing using Ion Torrent PGM...
June 2016: 3 Biotech
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